-- dump date 20140620_054118 -- class Genbank::misc_feature -- table misc_feature_note -- id note 554290000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 554290000002 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 554290000003 putative catalytic residues [active] 554290000004 putative nucleotide binding site [chemical binding]; other site 554290000005 putative aspartate binding site [chemical binding]; other site 554290000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 554290000007 dimer interface [polypeptide binding]; other site 554290000008 putative threonine allosteric regulatory site; other site 554290000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 554290000010 putative threonine allosteric regulatory site; other site 554290000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 554290000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 554290000013 homoserine kinase; Provisional; Region: PRK01212 554290000014 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 554290000015 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 554290000016 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 554290000017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290000018 catalytic residue [active] 554290000019 hypothetical protein; Validated; Region: PRK02101 554290000020 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 554290000021 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 554290000022 transaldolase-like protein; Provisional; Region: PTZ00411 554290000023 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 554290000024 active site 554290000025 dimer interface [polypeptide binding]; other site 554290000026 catalytic residue [active] 554290000027 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 554290000028 MPT binding site; other site 554290000029 trimer interface [polypeptide binding]; other site 554290000030 hypothetical protein; Provisional; Region: PRK10659 554290000031 hypothetical protein; Provisional; Region: PRK10236 554290000032 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 554290000033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 554290000034 Protein of unknown function (DUF2541); Region: DUF2541; pfam10807 554290000035 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 554290000036 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 554290000037 nucleotide binding site [chemical binding]; other site 554290000038 chaperone protein DnaJ; Provisional; Region: PRK10767 554290000039 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 554290000040 HSP70 interaction site [polypeptide binding]; other site 554290000041 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 554290000042 substrate binding site [polypeptide binding]; other site 554290000043 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 554290000044 Zn binding sites [ion binding]; other site 554290000045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 554290000046 dimer interface [polypeptide binding]; other site 554290000047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290000048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000049 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 554290000050 dimerization interface [polypeptide binding]; other site 554290000051 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 554290000052 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 554290000053 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 554290000054 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 554290000056 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 554290000057 Helix-turn-helix domain; Region: HTH_36; pfam13730 554290000058 fimbrial protein BcfA; Provisional; Region: PRK15187 554290000059 fimbrial chaperone protein BcfB; Provisional; Region: PRK15188 554290000060 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290000061 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290000062 outer membrane usher protein; Provisional; Region: PRK15193 554290000063 PapC N-terminal domain; Region: PapC_N; pfam13954 554290000064 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290000065 PapC C-terminal domain; Region: PapC_C; pfam13953 554290000066 fimbrial protein BcfD; Provisional; Region: PRK15189 554290000067 fimbrial protein BcfE; Provisional; Region: PRK15190 554290000069 fimbrial chaperone BcfG; Provisional; Region: PRK15192 554290000070 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290000071 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290000072 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 554290000073 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 554290000074 catalytic residues [active] 554290000075 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 554290000076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290000077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000078 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 554290000079 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 554290000080 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 554290000081 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 554290000082 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 554290000083 active site 554290000084 metal binding site [ion binding]; metal-binding site 554290000085 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 554290000086 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 554290000088 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 554290000089 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 554290000090 FeS/SAM binding site; other site 554290000091 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 554290000092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 554290000093 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 554290000094 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 554290000095 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 554290000096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000097 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 554290000098 putative dimerization interface [polypeptide binding]; other site 554290000099 putative alpha-glucosidase; Provisional; Region: PRK10658 554290000100 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 554290000101 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 554290000102 putative active site [active] 554290000103 putative catalytic site [active] 554290000104 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 554290000105 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 554290000106 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 554290000107 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 554290000108 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 554290000109 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 554290000110 active site 554290000111 Riboflavin kinase; Region: Flavokinase; smart00904 554290000112 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 554290000113 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 554290000114 active site 554290000115 HIGH motif; other site 554290000116 nucleotide binding site [chemical binding]; other site 554290000117 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 554290000118 active site 554290000119 KMSKS motif; other site 554290000120 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 554290000121 tRNA binding surface [nucleotide binding]; other site 554290000122 anticodon binding site; other site 554290000123 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 554290000124 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 554290000125 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 554290000126 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 554290000127 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 554290000128 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 554290000129 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 554290000130 active site 554290000131 tetramer interface [polypeptide binding]; other site 554290000132 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 554290000133 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 554290000134 active site 554290000135 phosphorylation site [posttranslational modification] 554290000136 intermolecular recognition site; other site 554290000137 dimerization interface [polypeptide binding]; other site 554290000138 Transcriptional regulator; Region: CitT; pfam12431 554290000139 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 554290000140 PAS domain; Region: PAS; smart00091 554290000141 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 554290000142 ATP binding site [chemical binding]; other site 554290000143 Mg2+ binding site [ion binding]; other site 554290000144 G-X-G motif; other site 554290000145 oxaloacetate decarboxylase subunit beta; Provisional; Region: PRK15476 554290000146 oxaloacetate decarboxylase; Provisional; Region: PRK14040 554290000147 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 554290000148 active site 554290000149 catalytic residues [active] 554290000150 metal binding site [ion binding]; metal-binding site 554290000151 homodimer binding site [polypeptide binding]; other site 554290000152 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 554290000153 carboxyltransferase (CT) interaction site; other site 554290000154 biotinylation site [posttranslational modification]; other site 554290000155 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 554290000156 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 554290000157 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 554290000158 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 554290000159 putative active site [active] 554290000160 (T/H)XGH motif; other site 554290000161 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 554290000162 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 554290000163 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 554290000164 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 554290000165 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 554290000166 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 554290000167 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 554290000168 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 554290000169 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 554290000171 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 554290000172 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 554290000173 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 554290000174 catalytic site [active] 554290000175 subunit interface [polypeptide binding]; other site 554290000176 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 554290000177 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 554290000178 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 554290000179 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 554290000180 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 554290000181 ATP-grasp domain; Region: ATP-grasp_4; cl17255 554290000182 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 554290000183 IMP binding site; other site 554290000184 dimer interface [polypeptide binding]; other site 554290000185 interdomain contacts; other site 554290000186 partial ornithine binding site; other site 554290000187 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 554290000188 carnitine operon protein CaiE; Provisional; Region: PRK13627 554290000189 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 554290000190 putative trimer interface [polypeptide binding]; other site 554290000191 putative metal binding site [ion binding]; other site 554290000192 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 554290000193 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 554290000194 substrate binding site [chemical binding]; other site 554290000195 oxyanion hole (OAH) forming residues; other site 554290000196 trimer interface [polypeptide binding]; other site 554290000197 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 554290000198 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 554290000199 acyl-activating enzyme (AAE) consensus motif; other site 554290000200 putative AMP binding site [chemical binding]; other site 554290000201 putative active site [active] 554290000202 putative CoA binding site [chemical binding]; other site 554290000203 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 554290000204 CoA-transferase family III; Region: CoA_transf_3; pfam02515 554290000205 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 554290000206 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 554290000207 active site 554290000208 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 554290000209 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 554290000210 Ligand binding site [chemical binding]; other site 554290000211 Electron transfer flavoprotein domain; Region: ETF; pfam01012 554290000212 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 554290000213 Electron transfer flavoprotein domain; Region: ETF; smart00893 554290000214 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 554290000215 putative oxidoreductase FixC; Provisional; Region: PRK10157 554290000216 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 554290000217 ferredoxin-like protein FixX; Provisional; Region: PRK15449 554290000218 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 554290000219 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 554290000220 putative substrate translocation pore; other site 554290000221 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 554290000222 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290000223 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 554290000224 Sulfatase; Region: Sulfatase; cl17466 554290000225 Sulfatase; Region: Sulfatase; cl17466 554290000226 Sulfatase; Region: Sulfatase; cl17466 554290000228 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 554290000229 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 554290000230 TrkA-N domain; Region: TrkA_N; pfam02254 554290000231 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 554290000232 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 554290000233 folate binding site [chemical binding]; other site 554290000234 NADP+ binding site [chemical binding]; other site 554290000235 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 554290000236 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 554290000237 active site 554290000238 metal binding site [ion binding]; metal-binding site 554290000239 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 554290000240 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 554290000241 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 554290000242 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 554290000243 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 554290000244 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 554290000245 SurA N-terminal domain; Region: SurA_N; pfam09312 554290000246 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 554290000247 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 554290000248 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 554290000249 OstA-like protein; Region: OstA; pfam03968 554290000250 Organic solvent tolerance protein; Region: OstA_C; pfam04453 554290000251 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 554290000252 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 554290000253 putative metal binding site [ion binding]; other site 554290000254 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 554290000255 HSP70 interaction site [polypeptide binding]; other site 554290000256 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 554290000257 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 554290000258 active site 554290000259 ATP-dependent helicase HepA; Validated; Region: PRK04914 554290000260 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 554290000261 ATP binding site [chemical binding]; other site 554290000262 putative Mg++ binding site [ion binding]; other site 554290000263 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 554290000264 nucleotide binding region [chemical binding]; other site 554290000265 ATP-binding site [chemical binding]; other site 554290000266 DNA polymerase II; Reviewed; Region: PRK05762 554290000267 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 554290000268 active site 554290000269 catalytic site [active] 554290000270 substrate binding site [chemical binding]; other site 554290000271 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 554290000272 active site 554290000273 metal-binding site 554290000274 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290000275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 554290000276 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 554290000277 Probable transposase; Region: OrfB_IS605; pfam01385 554290000278 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 554290000279 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 554290000280 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 554290000281 intersubunit interface [polypeptide binding]; other site 554290000282 active site 554290000283 Zn2+ binding site [ion binding]; other site 554290000284 L-arabinose isomerase; Provisional; Region: PRK02929 554290000285 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 554290000286 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 554290000287 trimer interface [polypeptide binding]; other site 554290000288 putative substrate binding site [chemical binding]; other site 554290000289 putative metal binding site [ion binding]; other site 554290000290 ribulokinase; Provisional; Region: PRK04123 554290000291 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 554290000292 N- and C-terminal domain interface [polypeptide binding]; other site 554290000293 active site 554290000294 MgATP binding site [chemical binding]; other site 554290000295 catalytic site [active] 554290000296 metal binding site [ion binding]; metal-binding site 554290000297 carbohydrate binding site [chemical binding]; other site 554290000298 homodimer interface [polypeptide binding]; other site 554290000299 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 554290000300 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 554290000301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290000302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290000303 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 554290000304 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 554290000305 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 554290000306 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 554290000307 Walker A/P-loop; other site 554290000308 ATP binding site [chemical binding]; other site 554290000309 Q-loop/lid; other site 554290000310 ABC transporter signature motif; other site 554290000311 Walker B; other site 554290000312 D-loop; other site 554290000313 H-loop/switch region; other site 554290000314 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 554290000315 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 554290000316 dimer interface [polypeptide binding]; other site 554290000317 conserved gate region; other site 554290000318 putative PBP binding loops; other site 554290000319 ABC-ATPase subunit interface; other site 554290000320 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 554290000321 dimer interface [polypeptide binding]; other site 554290000322 conserved gate region; other site 554290000323 putative PBP binding loops; other site 554290000324 ABC-ATPase subunit interface; other site 554290000325 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 554290000326 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 554290000327 transcriptional regulator SgrR; Provisional; Region: PRK13626 554290000328 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 554290000329 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 554290000330 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 554290000331 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 554290000332 substrate binding site [chemical binding]; other site 554290000333 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 554290000334 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 554290000335 substrate binding site [chemical binding]; other site 554290000336 ligand binding site [chemical binding]; other site 554290000337 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 554290000338 tartrate dehydrogenase; Region: TTC; TIGR02089 554290000339 2-isopropylmalate synthase; Validated; Region: PRK00915 554290000340 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 554290000341 active site 554290000342 catalytic residues [active] 554290000343 metal binding site [ion binding]; metal-binding site 554290000344 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 554290000345 leu operon leader peptide; Provisional; Region: PRK14744 554290000346 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 554290000347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000348 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 554290000349 putative substrate binding pocket [chemical binding]; other site 554290000350 putative dimerization interface [polypeptide binding]; other site 554290000351 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 554290000352 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 554290000353 PYR/PP interface [polypeptide binding]; other site 554290000354 dimer interface [polypeptide binding]; other site 554290000355 TPP binding site [chemical binding]; other site 554290000356 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290000357 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 554290000358 TPP-binding site [chemical binding]; other site 554290000359 dimer interface [polypeptide binding]; other site 554290000360 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 554290000361 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 554290000362 putative valine binding site [chemical binding]; other site 554290000363 dimer interface [polypeptide binding]; other site 554290000364 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 554290000365 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 554290000366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290000367 DNA binding site [nucleotide binding] 554290000368 domain linker motif; other site 554290000369 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 554290000370 dimerization interface [polypeptide binding]; other site 554290000371 ligand binding site [chemical binding]; other site 554290000372 mraZ protein; Region: TIGR00242 554290000373 MraZ protein; Region: MraZ; pfam02381 554290000374 MraZ protein; Region: MraZ; pfam02381 554290000375 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 554290000376 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 554290000377 cell division protein FtsL; Provisional; Region: PRK10772 554290000378 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 554290000379 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 554290000380 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 554290000381 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 554290000382 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 554290000383 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 554290000384 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 554290000385 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 554290000386 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 554290000387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 554290000388 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 554290000389 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 554290000390 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 554290000391 Mg++ binding site [ion binding]; other site 554290000392 putative catalytic motif [active] 554290000393 putative substrate binding site [chemical binding]; other site 554290000394 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 554290000395 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 554290000396 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 554290000397 cell division protein FtsW; Provisional; Region: PRK10774 554290000398 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 554290000399 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 554290000400 active site 554290000401 homodimer interface [polypeptide binding]; other site 554290000402 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 554290000403 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 554290000404 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 554290000405 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 554290000406 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 554290000407 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 554290000408 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 554290000409 cell division protein FtsQ; Provisional; Region: PRK10775 554290000410 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 554290000411 Cell division protein FtsQ; Region: FtsQ; pfam03799 554290000412 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 554290000413 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290000414 Cell division protein FtsA; Region: FtsA; pfam14450 554290000415 cell division protein FtsZ; Validated; Region: PRK09330 554290000416 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 554290000417 nucleotide binding site [chemical binding]; other site 554290000418 SulA interaction site; other site 554290000419 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 554290000420 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 554290000421 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 554290000422 SecA regulator SecM; Provisional; Region: PRK02943 554290000423 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 554290000424 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 554290000425 SEC-C motif; Region: SEC-C; pfam02810 554290000426 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 554290000427 active site 554290000428 8-oxo-dGMP binding site [chemical binding]; other site 554290000429 nudix motif; other site 554290000430 metal binding site [ion binding]; metal-binding site 554290000431 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 554290000432 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290000433 active site 554290000434 catalytic tetrad [active] 554290000435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290000436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000437 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 554290000438 putative effector binding pocket; other site 554290000439 putative dimerization interface [polypeptide binding]; other site 554290000440 DNA gyrase inhibitor; Reviewed; Region: PRK00418 554290000441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 554290000442 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 554290000443 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 554290000444 CoA-binding site [chemical binding]; other site 554290000445 ATP-binding [chemical binding]; other site 554290000446 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 554290000447 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 554290000448 active site 554290000449 type IV pilin biogenesis protein; Provisional; Region: PRK10573 554290000450 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 554290000451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 554290000452 hypothetical protein; Provisional; Region: PRK10436 554290000453 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 554290000454 Walker A motif; other site 554290000455 ATP binding site [chemical binding]; other site 554290000456 Walker B motif; other site 554290000457 putative major pilin subunit; Provisional; Region: PRK10574 554290000458 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 554290000459 Pilin (bacterial filament); Region: Pilin; pfam00114 554290000460 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 554290000461 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 554290000462 dimerization interface [polypeptide binding]; other site 554290000463 active site 554290000464 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 554290000465 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 554290000466 amidase catalytic site [active] 554290000467 Zn binding residues [ion binding]; other site 554290000468 substrate binding site [chemical binding]; other site 554290000469 regulatory protein AmpE; Provisional; Region: PRK10987 554290000470 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 554290000471 active site 554290000472 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 554290000473 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 554290000474 putative substrate translocation pore; other site 554290000475 aromatic amino acid transporter; Provisional; Region: PRK10238 554290000476 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 554290000477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290000478 DNA-binding site [nucleotide binding]; DNA binding site 554290000479 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 554290000480 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 554290000481 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 554290000482 dimer interface [polypeptide binding]; other site 554290000483 TPP-binding site [chemical binding]; other site 554290000484 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 554290000485 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 554290000486 E3 interaction surface; other site 554290000487 lipoyl attachment site [posttranslational modification]; other site 554290000488 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 554290000489 E3 interaction surface; other site 554290000490 lipoyl attachment site [posttranslational modification]; other site 554290000491 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 554290000492 E3 interaction surface; other site 554290000493 lipoyl attachment site [posttranslational modification]; other site 554290000494 e3 binding domain; Region: E3_binding; pfam02817 554290000495 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 554290000496 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 554290000497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 554290000498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290000499 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 554290000500 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 554290000501 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 554290000502 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 554290000503 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 554290000504 substrate binding site [chemical binding]; other site 554290000505 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 554290000506 substrate binding site [chemical binding]; other site 554290000507 ligand binding site [chemical binding]; other site 554290000508 hypothetical protein; Provisional; Region: PRK05248 554290000509 2-keto-3-deoxygluconate permease; Provisional; Region: PRK12460 554290000510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 554290000511 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 554290000512 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 554290000513 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290000514 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290000515 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290000516 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 554290000517 spermidine synthase; Provisional; Region: PRK00811 554290000518 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 554290000519 S-adenosylmethionine binding site [chemical binding]; other site 554290000520 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 554290000521 multicopper oxidase; Provisional; Region: PRK10965 554290000522 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 554290000523 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 554290000524 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 554290000525 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 554290000526 Trp docking motif [polypeptide binding]; other site 554290000527 putative active site [active] 554290000528 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 554290000529 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290000530 active site 554290000531 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 554290000532 active site clefts [active] 554290000533 zinc binding site [ion binding]; other site 554290000534 dimer interface [polypeptide binding]; other site 554290000535 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 554290000536 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 554290000537 Walker A/P-loop; other site 554290000538 ATP binding site [chemical binding]; other site 554290000539 Q-loop/lid; other site 554290000540 ABC transporter signature motif; other site 554290000541 Walker B; other site 554290000542 D-loop; other site 554290000543 H-loop/switch region; other site 554290000544 inner membrane transport permease; Provisional; Region: PRK15066 554290000545 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 554290000546 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 554290000547 active pocket/dimerization site; other site 554290000548 active site 554290000549 phosphorylation site [posttranslational modification] 554290000550 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 554290000551 putative active site [active] 554290000552 putative metal binding site [ion binding]; other site 554290000553 putative fimbrial protein StkG; Provisional; Region: PRK15305 554290000554 putative fimbrial protein StaF; Provisional; Region: PRK15262 554290000555 putative fimbrial protein StaE; Provisional; Region: PRK15263 554290000556 putative fimbrial protein StkD; Provisional; Region: PRK15306 554290000557 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 554290000558 PapC N-terminal domain; Region: PapC_N; pfam13954 554290000559 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290000560 PapC C-terminal domain; Region: PapC_C; pfam13953 554290000561 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 554290000562 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290000563 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290000564 major fimbrial protein StkA; Provisional; Region: PRK15307 554290000565 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 554290000566 tetramerization interface [polypeptide binding]; other site 554290000567 active site 554290000568 Pantoate-beta-alanine ligase; Region: PanC; cd00560 554290000569 pantoate--beta-alanine ligase; Region: panC; TIGR00018 554290000570 active site 554290000571 ATP-binding site [chemical binding]; other site 554290000572 pantoate-binding site; other site 554290000573 HXXH motif; other site 554290000574 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 554290000575 oligomerization interface [polypeptide binding]; other site 554290000576 active site 554290000577 metal binding site [ion binding]; metal-binding site 554290000578 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 554290000579 catalytic center binding site [active] 554290000580 ATP binding site [chemical binding]; other site 554290000581 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 554290000582 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 554290000583 active site 554290000584 NTP binding site [chemical binding]; other site 554290000585 metal binding triad [ion binding]; metal-binding site 554290000586 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 554290000587 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 554290000588 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 554290000589 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 554290000590 active site 554290000591 nucleotide binding site [chemical binding]; other site 554290000592 HIGH motif; other site 554290000593 KMSKS motif; other site 554290000594 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 554290000595 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 554290000596 2'-5' RNA ligase; Provisional; Region: PRK15124 554290000597 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 554290000598 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 554290000599 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 554290000600 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 554290000601 ATP binding site [chemical binding]; other site 554290000602 putative Mg++ binding site [ion binding]; other site 554290000603 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 554290000604 nucleotide binding region [chemical binding]; other site 554290000605 ATP-binding site [chemical binding]; other site 554290000606 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 554290000607 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 554290000608 Transglycosylase; Region: Transgly; pfam00912 554290000609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 554290000611 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 554290000612 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 554290000613 Walker A/P-loop; other site 554290000614 ATP binding site [chemical binding]; other site 554290000615 Q-loop/lid; other site 554290000616 ABC transporter signature motif; other site 554290000617 Walker B; other site 554290000618 D-loop; other site 554290000619 H-loop/switch region; other site 554290000620 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 554290000621 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 554290000622 siderophore binding site; other site 554290000623 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 554290000624 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 554290000625 ABC-ATPase subunit interface; other site 554290000626 dimer interface [polypeptide binding]; other site 554290000627 putative PBP binding regions; other site 554290000628 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 554290000629 ABC-ATPase subunit interface; other site 554290000630 dimer interface [polypeptide binding]; other site 554290000631 putative PBP binding regions; other site 554290000632 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 554290000633 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290000634 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290000635 putative minor fimbrial subunit StfE; Provisional; Region: PRK15286 554290000637 putative minor fimbrial subunit StfG; Provisional; Region: PRK15288 554290000638 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 554290000639 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 554290000640 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 554290000641 inhibitor-cofactor binding pocket; inhibition site 554290000642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290000643 catalytic residue [active] 554290000644 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 554290000645 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 554290000646 Cl- selectivity filter; other site 554290000647 Cl- binding residues [ion binding]; other site 554290000648 pore gating glutamate residue; other site 554290000649 dimer interface [polypeptide binding]; other site 554290000650 H+/Cl- coupling transport residue; other site 554290000651 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 554290000652 hypothetical protein; Provisional; Region: PRK10578 554290000653 UPF0126 domain; Region: UPF0126; pfam03458 554290000654 UPF0126 domain; Region: UPF0126; pfam03458 554290000655 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 554290000656 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 554290000657 cobalamin binding residues [chemical binding]; other site 554290000658 putative BtuC binding residues; other site 554290000659 dimer interface [polypeptide binding]; other site 554290000660 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 554290000661 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 554290000662 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 554290000663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 554290000664 Zn2+ binding site [ion binding]; other site 554290000665 Mg2+ binding site [ion binding]; other site 554290000666 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 554290000667 serine endoprotease; Provisional; Region: PRK10942 554290000668 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 554290000669 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 554290000670 protein binding site [polypeptide binding]; other site 554290000671 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 554290000672 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 554290000673 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 554290000674 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 554290000675 hypothetical protein; Provisional; Region: PRK13677 554290000676 shikimate transporter; Provisional; Region: PRK09952 554290000677 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 554290000678 putative substrate translocation pore; other site 554290000679 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 554290000680 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 554290000681 trimer interface [polypeptide binding]; other site 554290000682 active site 554290000683 substrate binding site [chemical binding]; other site 554290000684 CoA binding site [chemical binding]; other site 554290000685 PII uridylyl-transferase; Provisional; Region: PRK05007 554290000686 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 554290000687 metal binding triad; other site 554290000688 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 554290000689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 554290000690 Zn2+ binding site [ion binding]; other site 554290000691 Mg2+ binding site [ion binding]; other site 554290000692 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 554290000693 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 554290000694 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 554290000695 active site 554290000696 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 554290000697 rRNA interaction site [nucleotide binding]; other site 554290000698 S8 interaction site; other site 554290000699 putative laminin-1 binding site; other site 554290000700 elongation factor Ts; Provisional; Region: tsf; PRK09377 554290000701 UBA/TS-N domain; Region: UBA; pfam00627 554290000702 Elongation factor TS; Region: EF_TS; pfam00889 554290000703 Elongation factor TS; Region: EF_TS; pfam00889 554290000704 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 554290000705 putative nucleotide binding site [chemical binding]; other site 554290000706 uridine monophosphate binding site [chemical binding]; other site 554290000707 homohexameric interface [polypeptide binding]; other site 554290000708 ribosome recycling factor; Reviewed; Region: frr; PRK00083 554290000709 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 554290000710 hinge region; other site 554290000711 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 554290000712 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 554290000713 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 554290000714 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 554290000715 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 554290000716 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 554290000717 catalytic residue [active] 554290000718 putative FPP diphosphate binding site; other site 554290000719 putative FPP binding hydrophobic cleft; other site 554290000720 dimer interface [polypeptide binding]; other site 554290000721 putative IPP diphosphate binding site; other site 554290000722 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 554290000723 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 554290000724 zinc metallopeptidase RseP; Provisional; Region: PRK10779 554290000725 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 554290000726 active site 554290000727 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 554290000728 protein binding site [polypeptide binding]; other site 554290000729 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 554290000730 protein binding site [polypeptide binding]; other site 554290000731 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 554290000732 putative substrate binding region [chemical binding]; other site 554290000733 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 554290000734 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290000735 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290000736 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290000737 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290000738 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290000739 Surface antigen; Region: Bac_surface_Ag; pfam01103 554290000740 periplasmic chaperone; Provisional; Region: PRK10780 554290000741 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 554290000742 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 554290000743 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 554290000744 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 554290000745 trimer interface [polypeptide binding]; other site 554290000746 active site 554290000747 UDP-GlcNAc binding site [chemical binding]; other site 554290000748 lipid binding site [chemical binding]; lipid-binding site 554290000749 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 554290000750 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 554290000751 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 554290000752 active site 554290000753 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 554290000754 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 554290000755 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 554290000756 RNA/DNA hybrid binding site [nucleotide binding]; other site 554290000757 active site 554290000758 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 554290000759 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 554290000760 putative active site [active] 554290000761 putative PHP Thumb interface [polypeptide binding]; other site 554290000762 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 554290000763 generic binding surface II; other site 554290000764 generic binding surface I; other site 554290000765 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 554290000766 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 554290000767 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 554290000768 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but some...; Region: chitinase_glyco_hydro_19; cd00325 554290000769 putative sugar binding site [chemical binding]; other site 554290000770 catalytic residues [active] 554290000771 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 554290000772 lysine decarboxylase LdcC; Provisional; Region: PRK15399 554290000773 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 554290000774 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 554290000775 homodimer interface [polypeptide binding]; other site 554290000776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290000777 catalytic residue [active] 554290000778 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 554290000779 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 554290000780 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 554290000781 putative metal binding site [ion binding]; other site 554290000782 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 554290000783 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 554290000784 Ligand Binding Site [chemical binding]; other site 554290000785 TilS substrate binding domain; Region: TilS; pfam09179 554290000786 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 554290000787 Rho-binding antiterminator; Provisional; Region: PRK11625 554290000788 hypothetical protein; Provisional; Region: PRK04964 554290000789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 554290000790 hypothetical protein; Provisional; Region: PRK09256 554290000791 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 554290000792 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 554290000793 NlpE N-terminal domain; Region: NlpE; pfam04170 554290000794 prolyl-tRNA synthetase; Provisional; Region: PRK09194 554290000795 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 554290000796 dimer interface [polypeptide binding]; other site 554290000797 motif 1; other site 554290000798 active site 554290000799 motif 2; other site 554290000800 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 554290000801 putative deacylase active site [active] 554290000802 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 554290000803 active site 554290000804 motif 3; other site 554290000805 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 554290000806 anticodon binding site; other site 554290000807 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 554290000808 homodimer interaction site [polypeptide binding]; other site 554290000809 cofactor binding site; other site 554290000810 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 554290000811 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 554290000812 lipoprotein, YaeC family; Region: TIGR00363 554290000813 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 554290000814 dimer interface [polypeptide binding]; other site 554290000815 conserved gate region; other site 554290000816 ABC-ATPase subunit interface; other site 554290000817 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 554290000818 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 554290000819 Walker A/P-loop; other site 554290000820 ATP binding site [chemical binding]; other site 554290000821 Q-loop/lid; other site 554290000822 ABC transporter signature motif; other site 554290000823 Walker B; other site 554290000824 D-loop; other site 554290000825 H-loop/switch region; other site 554290000826 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 554290000827 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 554290000828 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 554290000829 active site 554290000830 motif I; other site 554290000831 motif II; other site 554290000832 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 554290000833 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 554290000834 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 554290000835 putative substrate translocation pore; other site 554290000836 lipoprotein; Provisional; Region: PRK10759 554290000837 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 554290000838 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 554290000839 domain interface [polypeptide binding]; other site 554290000840 putative active site [active] 554290000841 catalytic site [active] 554290000842 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 554290000843 domain interface [polypeptide binding]; other site 554290000844 putative active site [active] 554290000845 catalytic site [active] 554290000846 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 554290000847 CoA binding domain; Region: CoA_binding_2; pfam13380 554290000848 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 554290000849 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 554290000850 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 554290000851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290000852 Coenzyme A binding pocket [chemical binding]; other site 554290000853 Uncharacterized conserved protein [Function unknown]; Region: COG3148 554290000854 thioredoxin 2; Provisional; Region: PRK10996 554290000855 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 554290000856 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 554290000857 catalytic residues [active] 554290000859 putative methyltransferase; Provisional; Region: PRK10864 554290000860 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 554290000861 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 554290000862 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 554290000863 ligand binding site [chemical binding]; other site 554290000864 active site 554290000865 UGI interface [polypeptide binding]; other site 554290000866 catalytic site [active] 554290000867 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 554290000868 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 554290000869 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290000870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000871 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 554290000872 dimerization interface [polypeptide binding]; other site 554290000873 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 554290000874 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 554290000875 ATP binding site [chemical binding]; other site 554290000876 Mg++ binding site [ion binding]; other site 554290000877 motif III; other site 554290000878 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 554290000879 nucleotide binding region [chemical binding]; other site 554290000880 ATP-binding site [chemical binding]; other site 554290000881 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 554290000882 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 554290000883 S-adenosylmethionine binding site [chemical binding]; other site 554290000884 L-aspartate oxidase; Provisional; Region: PRK09077 554290000885 L-aspartate oxidase; Provisional; Region: PRK06175 554290000886 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 554290000887 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 554290000888 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 554290000889 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 554290000890 DNA binding residues [nucleotide binding] 554290000891 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 554290000892 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 554290000893 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 554290000894 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 554290000895 anti-sigma E factor; Provisional; Region: rseB; PRK09455 554290000896 SoxR reducing system protein RseC; Provisional; Region: PRK10862 554290000897 GTP-binding protein LepA; Provisional; Region: PRK05433 554290000898 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 554290000899 G1 box; other site 554290000900 putative GEF interaction site [polypeptide binding]; other site 554290000901 GTP/Mg2+ binding site [chemical binding]; other site 554290000902 Switch I region; other site 554290000903 G2 box; other site 554290000904 G3 box; other site 554290000905 Switch II region; other site 554290000906 G4 box; other site 554290000907 G5 box; other site 554290000908 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 554290000909 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 554290000910 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 554290000911 signal peptidase I; Provisional; Region: PRK10861 554290000912 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 554290000913 Catalytic site [active] 554290000914 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 554290000915 ribonuclease III; Reviewed; Region: rnc; PRK00102 554290000916 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 554290000917 dimerization interface [polypeptide binding]; other site 554290000918 active site 554290000919 metal binding site [ion binding]; metal-binding site 554290000920 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 554290000921 dsRNA binding site [nucleotide binding]; other site 554290000922 GTPase Era; Reviewed; Region: era; PRK00089 554290000923 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 554290000924 G1 box; other site 554290000925 GTP/Mg2+ binding site [chemical binding]; other site 554290000926 Switch I region; other site 554290000927 G2 box; other site 554290000928 Switch II region; other site 554290000929 G3 box; other site 554290000930 G4 box; other site 554290000931 G5 box; other site 554290000932 KH domain; Region: KH_2; pfam07650 554290000933 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 554290000934 Recombination protein O N terminal; Region: RecO_N; pfam11967 554290000935 Recombination protein O C terminal; Region: RecO_C; pfam02565 554290000936 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 554290000937 active site 554290000938 hydrophilic channel; other site 554290000939 dimerization interface [polypeptide binding]; other site 554290000940 catalytic residues [active] 554290000941 active site lid [active] 554290000942 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 554290000943 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 554290000944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290000945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290000946 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 554290000947 dimerization interface [polypeptide binding]; other site 554290000948 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 554290000949 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 554290000950 putative substrate translocation pore; other site 554290000951 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 554290000952 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 554290000953 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 554290000954 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 554290000955 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 554290000956 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 554290000957 putative active site [active] 554290000958 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 554290000959 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 554290000960 putative active site [active] 554290000961 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 554290000962 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 554290000963 active site turn [active] 554290000964 phosphorylation site [posttranslational modification] 554290000965 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 554290000966 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 554290000967 nucleoside/Zn binding site; other site 554290000968 dimer interface [polypeptide binding]; other site 554290000969 catalytic motif [active] 554290000970 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 554290000971 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 554290000972 substrate binding pocket [chemical binding]; other site 554290000973 membrane-bound complex binding site; other site 554290000974 hinge residues; other site 554290000975 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 554290000976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290000977 catalytic residue [active] 554290000978 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 554290000979 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 554290000980 dimerization interface [polypeptide binding]; other site 554290000981 ATP binding site [chemical binding]; other site 554290000982 Formylglycinamide ribonucleotide amidotransferase (FGAR-AT) catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP, phosphate, and glutamate in the fourth step of...; Region: PurL; cd02193 554290000983 dimerization interface [polypeptide binding]; other site 554290000984 ATP binding site [chemical binding]; other site 554290000985 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 554290000986 putative active site [active] 554290000987 catalytic triad [active] 554290000988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 554290000989 HAMP domain; Region: HAMP; pfam00672 554290000990 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 554290000991 dimer interface [polypeptide binding]; other site 554290000992 phosphorylation site [posttranslational modification] 554290000993 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 554290000994 ATP binding site [chemical binding]; other site 554290000995 Mg2+ binding site [ion binding]; other site 554290000996 G-X-G motif; other site 554290000997 hypothetical protein; Provisional; Region: PRK10722 554290000998 response regulator GlrR; Provisional; Region: PRK15115 554290000999 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 554290001000 active site 554290001001 phosphorylation site [posttranslational modification] 554290001002 intermolecular recognition site; other site 554290001003 dimerization interface [polypeptide binding]; other site 554290001004 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 554290001005 Walker A motif; other site 554290001006 ATP binding site [chemical binding]; other site 554290001007 Walker B motif; other site 554290001008 arginine finger; other site 554290001009 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 554290001010 Nitrogen regulatory protein P-II; Region: P-II; smart00938 554290001011 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 554290001012 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 554290001013 putative substrate translocation pore; other site 554290001014 POT family; Region: PTR2; pfam00854 554290001015 lysine decarboxylase CadA; Provisional; Region: PRK15400 554290001016 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 554290001017 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 554290001018 homodimer interface [polypeptide binding]; other site 554290001019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001020 catalytic residue [active] 554290001021 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 554290001022 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 554290001024 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 554290001025 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 554290001026 heme-binding site [chemical binding]; other site 554290001027 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 554290001028 FAD binding pocket [chemical binding]; other site 554290001029 FAD binding motif [chemical binding]; other site 554290001030 phosphate binding motif [ion binding]; other site 554290001031 beta-alpha-beta structure motif; other site 554290001032 NAD binding pocket [chemical binding]; other site 554290001033 Heme binding pocket [chemical binding]; other site 554290001034 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 554290001035 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 554290001036 dimer interface [polypeptide binding]; other site 554290001037 active site 554290001038 glycine-pyridoxal phosphate binding site [chemical binding]; other site 554290001039 folate binding site [chemical binding]; other site 554290001040 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 554290001041 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 554290001042 putative substrate translocation pore; other site 554290001043 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 554290001044 PRD domain; Region: PRD; pfam00874 554290001045 PRD domain; Region: PRD; pfam00874 554290001046 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 554290001047 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 554290001048 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 554290001049 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 554290001050 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 554290001051 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 554290001052 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 554290001053 FAD binding pocket [chemical binding]; other site 554290001054 FAD binding motif [chemical binding]; other site 554290001055 phosphate binding motif [ion binding]; other site 554290001056 beta-alpha-beta structure motif; other site 554290001057 NAD binding pocket [chemical binding]; other site 554290001058 Iron coordination center [ion binding]; other site 554290001059 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 554290001060 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 554290001061 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 554290001062 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 554290001063 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 554290001064 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 554290001065 active site 554290001066 dimerization interface [polypeptide binding]; other site 554290001067 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 554290001068 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 554290001069 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 554290001070 Rrf2 family protein; Region: rrf2_super; TIGR00738 554290001071 cysteine desulfurase; Provisional; Region: PRK14012 554290001072 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 554290001073 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290001074 catalytic residue [active] 554290001075 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 554290001076 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 554290001077 trimerization site [polypeptide binding]; other site 554290001078 active site 554290001079 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 554290001080 co-chaperone HscB; Provisional; Region: hscB; PRK05014 554290001081 DnaJ domain; Region: DnaJ; pfam00226 554290001082 HSP70 interaction site [polypeptide binding]; other site 554290001083 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 554290001084 chaperone protein HscA; Provisional; Region: hscA; PRK05183 554290001085 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 554290001086 nucleotide binding site [chemical binding]; other site 554290001087 putative NEF/HSP70 interaction site [polypeptide binding]; other site 554290001088 SBD interface [polypeptide binding]; other site 554290001089 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 554290001090 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 554290001091 catalytic loop [active] 554290001092 iron binding site [ion binding]; other site 554290001093 hypothetical protein; Provisional; Region: PRK10721 554290001094 aminopeptidase B; Provisional; Region: PRK05015 554290001095 Peptidase; Region: DUF3663; pfam12404 554290001096 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 554290001097 interface (dimer of trimers) [polypeptide binding]; other site 554290001098 Substrate-binding/catalytic site; other site 554290001099 Zn-binding sites [ion binding]; other site 554290001100 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 554290001101 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 554290001102 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 554290001103 active site residue [active] 554290001104 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 554290001105 active site residue [active] 554290001106 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 554290001107 MG2 domain; Region: A2M_N; pfam01835 554290001108 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 554290001109 surface patch; other site 554290001110 thioester region; other site 554290001111 specificity defining residues; other site 554290001112 penicillin-binding protein 1C; Provisional; Region: PRK11240 554290001113 Transglycosylase; Region: Transgly; pfam00912 554290001114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 554290001115 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 554290001117 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 554290001118 4Fe-4S binding domain; Region: Fer4; pfam00037 554290001119 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 554290001120 4Fe-4S binding domain; Region: Fer4; pfam00037 554290001121 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 554290001122 active site 554290001123 multimer interface [polypeptide binding]; other site 554290001124 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 554290001125 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 554290001126 FeS/SAM binding site; other site 554290001127 cytoskeletal protein RodZ; Provisional; Region: PRK10856 554290001128 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 554290001129 non-specific DNA binding site [nucleotide binding]; other site 554290001130 salt bridge; other site 554290001131 sequence-specific DNA binding site [nucleotide binding]; other site 554290001132 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 554290001133 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 554290001134 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 554290001135 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 554290001136 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 554290001137 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 554290001138 dimer interface [polypeptide binding]; other site 554290001139 motif 1; other site 554290001140 active site 554290001141 motif 2; other site 554290001142 motif 3; other site 554290001143 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 554290001144 anticodon binding site; other site 554290001145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 554290001146 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 554290001147 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 554290001148 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 554290001149 Trp docking motif [polypeptide binding]; other site 554290001150 GTP-binding protein Der; Reviewed; Region: PRK00093 554290001151 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 554290001152 G1 box; other site 554290001153 GTP/Mg2+ binding site [chemical binding]; other site 554290001154 Switch I region; other site 554290001155 G2 box; other site 554290001156 Switch II region; other site 554290001157 G3 box; other site 554290001158 G4 box; other site 554290001159 G5 box; other site 554290001160 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 554290001161 G1 box; other site 554290001162 GTP/Mg2+ binding site [chemical binding]; other site 554290001163 Switch I region; other site 554290001164 G2 box; other site 554290001165 G3 box; other site 554290001166 Switch II region; other site 554290001167 G4 box; other site 554290001168 G5 box; other site 554290001169 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 554290001171 intimin-like protein SinH; Provisional; Region: PRK15318 554290001172 outer membrane protein RatA; Provisional; Region: PRK15315 554290001173 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001174 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001175 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001176 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001177 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001178 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001179 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001180 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001181 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001182 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001183 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001184 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 554290001185 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 554290001188 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 554290001189 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 554290001190 generic binding surface II; other site 554290001191 generic binding surface I; other site 554290001192 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 554290001193 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 554290001194 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 554290001195 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 554290001196 active site 554290001197 GMP synthase; Reviewed; Region: guaA; PRK00074 554290001198 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 554290001199 AMP/PPi binding site [chemical binding]; other site 554290001200 candidate oxyanion hole; other site 554290001201 catalytic triad [active] 554290001202 potential glutamine specificity residues [chemical binding]; other site 554290001203 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 554290001204 ATP Binding subdomain [chemical binding]; other site 554290001205 Ligand Binding sites [chemical binding]; other site 554290001206 Dimerization subdomain; other site 554290001208 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 554290001209 MASE1; Region: MASE1; pfam05231 554290001210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290001211 diguanylate cyclase; Region: GGDEF; smart00267 554290001212 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 554290001213 exopolyphosphatase; Provisional; Region: PRK10854 554290001214 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 554290001215 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 554290001216 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 554290001217 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 554290001218 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 554290001219 putative active site [active] 554290001220 catalytic site [active] 554290001221 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 554290001222 domain interface [polypeptide binding]; other site 554290001223 active site 554290001224 catalytic site [active] 554290001225 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 554290001226 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 554290001227 active site 554290001228 substrate binding site [chemical binding]; other site 554290001229 cosubstrate binding site; other site 554290001230 catalytic site [active] 554290001231 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 554290001232 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 554290001233 dimerization interface [polypeptide binding]; other site 554290001234 putative ATP binding site [chemical binding]; other site 554290001235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290001236 active site 554290001237 uracil transporter; Provisional; Region: PRK10720 554290001238 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 554290001239 DNA replication initiation factor; Provisional; Region: PRK08084 554290001240 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 554290001241 ArsC family; Region: ArsC; pfam03960 554290001242 catalytic residues [active] 554290001243 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 554290001244 Peptidase family M48; Region: Peptidase_M48; cl12018 554290001246 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 554290001247 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 554290001248 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 554290001249 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 554290001250 fructuronate transporter; Provisional; Region: PRK10034; cl15264 554290001251 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 554290001252 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 554290001253 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 554290001254 catalytic triad [active] 554290001255 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 554290001256 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 554290001257 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 554290001258 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 554290001259 dihydrodipicolinate synthase; Region: dapA; TIGR00674 554290001260 dimer interface [polypeptide binding]; other site 554290001261 active site 554290001262 catalytic residue [active] 554290001263 lipoprotein; Provisional; Region: PRK11679 554290001264 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 554290001265 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 554290001266 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 554290001267 ATP binding site [chemical binding]; other site 554290001268 active site 554290001269 substrate binding site [chemical binding]; other site 554290001270 Predicted metalloprotease [General function prediction only]; Region: COG2321 554290001271 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 554290001272 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 554290001273 Helicase; Region: Helicase_RecD; pfam05127 554290001274 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 554290001275 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 554290001276 hypothetical protein; Provisional; Region: PRK13664 554290001277 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 554290001278 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 554290001279 metal binding site [ion binding]; metal-binding site 554290001280 dimer interface [polypeptide binding]; other site 554290001281 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 554290001282 ArsC family; Region: ArsC; pfam03960 554290001283 putative catalytic residues [active] 554290001284 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 554290001285 Protein export membrane protein; Region: SecD_SecF; cl14618 554290001287 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 554290001288 4Fe-4S binding domain; Region: Fer4; pfam00037 554290001289 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 554290001290 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290001291 putative periplasmic esterase; Provisional; Region: PRK03642 554290001292 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 554290001293 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 554290001294 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 554290001295 dimer interface [polypeptide binding]; other site 554290001296 ADP-ribose binding site [chemical binding]; other site 554290001297 active site 554290001298 nudix motif; other site 554290001299 metal binding site [ion binding]; metal-binding site 554290001300 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 554290001301 transketolase; Reviewed; Region: PRK12753 554290001302 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 554290001303 TPP-binding site [chemical binding]; other site 554290001304 dimer interface [polypeptide binding]; other site 554290001305 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 554290001306 PYR/PP interface [polypeptide binding]; other site 554290001307 dimer interface [polypeptide binding]; other site 554290001308 TPP binding site [chemical binding]; other site 554290001309 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 554290001310 transaldolase-like protein; Provisional; Region: PTZ00411 554290001311 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 554290001312 active site 554290001313 dimer interface [polypeptide binding]; other site 554290001314 catalytic residue [active] 554290001315 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 554290001316 Malic enzyme, N-terminal domain; Region: malic; pfam00390 554290001317 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 554290001318 putative NAD(P) binding site [chemical binding]; other site 554290001319 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 554290001320 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 554290001321 putative hexamer interface [polypeptide binding]; other site 554290001322 putative hexagonal pore; other site 554290001323 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 554290001324 G1 box; other site 554290001325 GTP/Mg2+ binding site [chemical binding]; other site 554290001326 G2 box; other site 554290001327 Switch I region; other site 554290001328 G3 box; other site 554290001329 Switch II region; other site 554290001330 G4 box; other site 554290001331 G5 box; other site 554290001332 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 554290001333 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 554290001334 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 554290001335 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 554290001336 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 554290001337 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 554290001338 Hexamer interface [polypeptide binding]; other site 554290001339 Putative hexagonal pore residue; other site 554290001340 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 554290001341 Hexamer/Pentamer interface [polypeptide binding]; other site 554290001342 central pore; other site 554290001343 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 554290001344 putative catalytic cysteine [active] 554290001345 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 554290001346 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290001347 nucleotide binding site [chemical binding]; other site 554290001348 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 554290001349 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 554290001350 active site 554290001351 metal binding site [ion binding]; metal-binding site 554290001352 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 554290001353 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 554290001354 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 554290001355 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 554290001356 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 554290001357 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 554290001358 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 554290001359 putative hexamer interface [polypeptide binding]; other site 554290001360 putative hexagonal pore; other site 554290001361 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 554290001362 putative hexamer interface [polypeptide binding]; other site 554290001363 putative hexagonal pore; other site 554290001364 carboxysome structural protein EutK; Provisional; Region: PRK15466 554290001365 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 554290001366 Hexamer interface [polypeptide binding]; other site 554290001367 Hexagonal pore residue; other site 554290001368 transcriptional regulator EutR; Provisional; Region: PRK10130 554290001369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290001370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290001371 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 554290001372 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 554290001373 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 554290001374 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 554290001375 active site 554290001376 metal binding site [ion binding]; metal-binding site 554290001377 putative acetyltransferase; Provisional; Region: PRK03624 554290001378 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290001379 Coenzyme A binding pocket [chemical binding]; other site 554290001380 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 554290001381 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 554290001382 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 554290001383 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 554290001384 short chain dehydrogenase; Provisional; Region: PRK08226 554290001385 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 554290001386 NAD binding site [chemical binding]; other site 554290001387 homotetramer interface [polypeptide binding]; other site 554290001388 homodimer interface [polypeptide binding]; other site 554290001389 active site 554290001390 thiosulfate transporter subunit; Provisional; Region: PRK10852 554290001391 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 554290001392 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 554290001393 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 554290001394 dimer interface [polypeptide binding]; other site 554290001395 conserved gate region; other site 554290001396 putative PBP binding loops; other site 554290001397 ABC-ATPase subunit interface; other site 554290001398 sulfate transport protein; Provisional; Region: cysT; CHL00187 554290001399 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 554290001400 dimer interface [polypeptide binding]; other site 554290001401 conserved gate region; other site 554290001402 putative PBP binding loops; other site 554290001403 ABC-ATPase subunit interface; other site 554290001404 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 554290001405 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 554290001406 Walker A/P-loop; other site 554290001407 ATP binding site [chemical binding]; other site 554290001408 Q-loop/lid; other site 554290001409 ABC transporter signature motif; other site 554290001410 Walker B; other site 554290001411 D-loop; other site 554290001412 H-loop/switch region; other site 554290001413 TOBE-like domain; Region: TOBE_3; pfam12857 554290001414 cysteine synthase B; Region: cysM; TIGR01138 554290001415 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 554290001416 dimer interface [polypeptide binding]; other site 554290001417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001418 catalytic residue [active] 554290001419 hypothetical protein; Provisional; Region: PRK10318 554290001420 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 554290001421 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 554290001422 catalytic triad [active] 554290001423 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 554290001424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290001425 DNA-binding site [nucleotide binding]; DNA binding site 554290001426 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 554290001427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001428 homodimer interface [polypeptide binding]; other site 554290001429 catalytic residue [active] 554290001430 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 554290001431 dimer interface [polypeptide binding]; other site 554290001432 pyridoxamine kinase; Validated; Region: PRK05756 554290001433 pyridoxal binding site [chemical binding]; other site 554290001434 ATP binding site [chemical binding]; other site 554290001435 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 554290001436 HPr interaction site; other site 554290001437 glycerol kinase (GK) interaction site [polypeptide binding]; other site 554290001438 active site 554290001439 phosphorylation site [posttranslational modification] 554290001440 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 554290001441 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 554290001442 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 554290001443 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 554290001444 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 554290001445 dimerization domain swap beta strand [polypeptide binding]; other site 554290001446 regulatory protein interface [polypeptide binding]; other site 554290001447 active site 554290001448 regulatory phosphorylation site [posttranslational modification]; other site 554290001449 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 554290001450 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 554290001451 dimer interface [polypeptide binding]; other site 554290001452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001453 catalytic residue [active] 554290001454 putative sulfate transport protein CysZ; Validated; Region: PRK04949 554290001455 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 554290001456 cell division protein ZipA; Provisional; Region: PRK03427 554290001457 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 554290001458 FtsZ protein binding site [polypeptide binding]; other site 554290001459 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 554290001460 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 554290001461 nucleotide binding pocket [chemical binding]; other site 554290001462 K-X-D-G motif; other site 554290001463 catalytic site [active] 554290001464 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 554290001465 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 554290001466 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 554290001467 Dimer interface [polypeptide binding]; other site 554290001468 BRCT sequence motif; other site 554290001469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 554290001470 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 554290001471 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 554290001472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290001473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290001474 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 554290001475 putative dimerization interface [polypeptide binding]; other site 554290001476 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 554290001477 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 554290001478 active site 554290001479 HIGH motif; other site 554290001480 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 554290001481 active site 554290001482 KMSKS motif; other site 554290001483 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 554290001484 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 554290001485 MASE1; Region: MASE1; pfam05231 554290001486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290001487 diguanylate cyclase; Region: GGDEF; smart00267 554290001488 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 554290001490 manganese transport protein MntH; Reviewed; Region: PRK00701 554290001491 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 554290001492 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 554290001493 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 554290001494 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290001495 active site 554290001496 catalytic tetrad [active] 554290001497 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 554290001498 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 554290001499 dimer interface [polypeptide binding]; other site 554290001500 PYR/PP interface [polypeptide binding]; other site 554290001501 TPP binding site [chemical binding]; other site 554290001502 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290001503 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 554290001504 TPP-binding site [chemical binding]; other site 554290001505 dimer interface [polypeptide binding]; other site 554290001506 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 554290001507 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 554290001508 Cl- selectivity filter; other site 554290001509 Cl- binding residues [ion binding]; other site 554290001510 pore gating glutamate residue; other site 554290001511 dimer interface [polypeptide binding]; other site 554290001512 glucokinase; Provisional; Region: glk; PRK00292 554290001513 glucokinase, proteobacterial type; Region: glk; TIGR00749 554290001514 aminotransferase; Validated; Region: PRK08175 554290001515 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 554290001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001517 homodimer interface [polypeptide binding]; other site 554290001518 catalytic residue [active] 554290001519 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 554290001520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 554290001521 putative acyl-acceptor binding pocket; other site 554290001522 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 554290001523 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 554290001524 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 554290001525 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 554290001526 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 554290001527 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 554290001529 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 554290001530 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 554290001531 active site 554290001532 phosphorylation site [posttranslational modification] 554290001533 intermolecular recognition site; other site 554290001534 dimerization interface [polypeptide binding]; other site 554290001535 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 554290001536 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290001537 outer membrane protease; Reviewed; Region: PRK10993 554290001538 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 554290001539 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 554290001540 active site 554290001541 Predicted membrane protein [Function unknown]; Region: COG2246 554290001542 GtrA-like protein; Region: GtrA; pfam04138 554290001543 similar to E. coli transposase Q8VR47_ECOLX N-terminal 554290001544 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 554290001545 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 554290001546 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 554290001547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 554290001548 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 554290001549 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 554290001550 dimer interface [polypeptide binding]; other site 554290001551 active site 554290001552 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 554290001553 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 554290001554 substrate binding site [chemical binding]; other site 554290001555 oxyanion hole (OAH) forming residues; other site 554290001556 trimer interface [polypeptide binding]; other site 554290001557 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 554290001558 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 554290001559 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 554290001560 catalytic core [active] 554290001561 hypothetical protein; Provisional; Region: PRK04946 554290001562 Smr domain; Region: Smr; pfam01713 554290001563 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 554290001564 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 554290001565 Tetramer interface [polypeptide binding]; other site 554290001566 active site 554290001567 FMN-binding site [chemical binding]; other site 554290001568 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 554290001569 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 554290001570 hypothetical protein; Provisional; Region: PRK10621 554290001571 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 554290001572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 554290001573 YfcL protein; Region: YfcL; pfam08891 554290001574 Uncharacterized conserved protein [Function unknown]; Region: COG4121 554290001575 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 554290001576 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 554290001577 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 554290001578 dimer interface [polypeptide binding]; other site 554290001579 active site 554290001580 CAAX protease self-immunity; Region: Abi; pfam02517 554290001581 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 554290001582 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 554290001583 non-specific DNA binding site [nucleotide binding]; other site 554290001584 salt bridge; other site 554290001585 sequence-specific DNA binding site [nucleotide binding]; other site 554290001586 putative transporter; Provisional; Region: PRK12382 554290001587 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 554290001588 putative substrate translocation pore; other site 554290001589 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 554290001590 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 554290001591 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 554290001592 ligand binding site [chemical binding]; other site 554290001593 NAD binding site [chemical binding]; other site 554290001594 catalytic site [active] 554290001595 homodimer interface [polypeptide binding]; other site 554290001596 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 554290001597 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 554290001598 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 554290001599 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 554290001600 dimerization interface 3.5A [polypeptide binding]; other site 554290001601 active site 554290001602 hypothetical protein; Provisional; Region: PRK10847 554290001603 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 554290001604 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 554290001605 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 554290001606 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 554290001607 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 554290001608 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 554290001609 cell division protein DedD; Provisional; Region: PRK11633 554290001610 Sporulation related domain; Region: SPOR; pfam05036 554290001611 colicin V production protein; Provisional; Region: PRK10845 554290001612 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 554290001613 amidophosphoribosyltransferase; Provisional; Region: PRK09246 554290001614 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 554290001615 active site 554290001616 tetramer interface [polypeptide binding]; other site 554290001617 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290001618 active site 554290001619 PAS fold; Region: PAS_4; pfam08448 554290001620 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 554290001621 putative active site [active] 554290001622 heme pocket [chemical binding]; other site 554290001623 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 554290001624 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 554290001625 Walker A motif; other site 554290001626 ATP binding site [chemical binding]; other site 554290001627 Walker B motif; other site 554290001628 arginine finger; other site 554290001629 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290001630 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 554290001631 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 554290001632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290001633 catalytic residue [active] 554290001634 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 554290001635 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 554290001636 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 554290001637 dimer interface [polypeptide binding]; other site 554290001638 active site 554290001639 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290001640 substrate binding site [chemical binding]; other site 554290001641 catalytic residue [active] 554290001642 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 554290001643 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 554290001644 Flavoprotein; Region: Flavoprotein; pfam02441 554290001645 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 554290001646 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 554290001647 substrate binding pocket [chemical binding]; other site 554290001648 membrane-bound complex binding site; other site 554290001649 hinge residues; other site 554290001650 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 554290001651 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 554290001652 substrate binding pocket [chemical binding]; other site 554290001653 membrane-bound complex binding site; other site 554290001654 hinge residues; other site 554290001655 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290001656 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 554290001657 dimer interface [polypeptide binding]; other site 554290001658 conserved gate region; other site 554290001659 putative PBP binding loops; other site 554290001660 ABC-ATPase subunit interface; other site 554290001661 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290001662 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 554290001663 dimer interface [polypeptide binding]; other site 554290001664 conserved gate region; other site 554290001665 putative PBP binding loops; other site 554290001666 ABC-ATPase subunit interface; other site 554290001667 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 554290001668 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 554290001669 Walker A/P-loop; other site 554290001670 ATP binding site [chemical binding]; other site 554290001671 Q-loop/lid; other site 554290001672 ABC transporter signature motif; other site 554290001673 Walker B; other site 554290001674 D-loop; other site 554290001675 H-loop/switch region; other site 554290001676 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 554290001677 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 554290001678 putative NAD(P) binding site [chemical binding]; other site 554290001679 putative active site [active] 554290001680 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 554290001681 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 554290001682 C-terminal domain interface [polypeptide binding]; other site 554290001683 GSH binding site (G-site) [chemical binding]; other site 554290001684 dimer interface [polypeptide binding]; other site 554290001685 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 554290001686 N-terminal domain interface [polypeptide binding]; other site 554290001687 putative dimer interface [polypeptide binding]; other site 554290001688 active site 554290001689 glutathione S-transferase; Provisional; Region: PRK15113 554290001690 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 554290001691 C-terminal domain interface [polypeptide binding]; other site 554290001692 GSH binding site (G-site) [chemical binding]; other site 554290001693 dimer interface [polypeptide binding]; other site 554290001694 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 554290001695 N-terminal domain interface [polypeptide binding]; other site 554290001696 putative dimer interface [polypeptide binding]; other site 554290001697 putative substrate binding pocket (H-site) [chemical binding]; other site 554290001698 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 554290001699 active site 554290001700 metal binding site [ion binding]; metal-binding site 554290001701 homotetramer interface [polypeptide binding]; other site 554290001702 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 554290001703 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 554290001704 nudix motif; other site 554290001705 Transcriptional regulators [Transcription]; Region: PurR; COG1609 554290001706 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290001707 DNA binding site [nucleotide binding] 554290001708 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 554290001709 putative dimerization interface [polypeptide binding]; other site 554290001710 putative ligand binding site [chemical binding]; other site 554290001711 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 554290001712 active site 554290001713 phosphorylation site [posttranslational modification] 554290001714 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 554290001715 active site 554290001716 P-loop; other site 554290001717 phosphorylation site [posttranslational modification] 554290001718 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK12996 554290001719 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 554290001720 TPP-binding site [chemical binding]; other site 554290001721 dimer interface [polypeptide binding]; other site 554290001722 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 554290001723 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 554290001724 PYR/PP interface [polypeptide binding]; other site 554290001725 dimer interface [polypeptide binding]; other site 554290001726 TPP binding site [chemical binding]; other site 554290001727 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 554290001728 hypothetical protein; Provisional; Region: PRK11588 554290001729 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 554290001730 phosphate acetyltransferase; Reviewed; Region: PRK05632 554290001731 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 554290001732 DRTGG domain; Region: DRTGG; pfam07085 554290001733 phosphate acetyltransferase; Region: pta; TIGR00651 554290001734 propionate/acetate kinase; Provisional; Region: PRK12379 554290001735 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 554290001736 hypothetical protein; Provisional; Region: PRK01816 554290001737 hypothetical protein; Validated; Region: PRK05445 554290001738 putative phosphatase; Provisional; Region: PRK11587 554290001739 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 554290001740 motif II; other site 554290001741 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 554290001742 transmembrane helices; other site 554290001743 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 554290001744 TrkA-C domain; Region: TrkA_C; pfam02080 554290001745 TrkA-C domain; Region: TrkA_C; pfam02080 554290001746 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 554290001747 5'-nucleotidase; Provisional; Region: PRK03826 554290001748 aminotransferase AlaT; Validated; Region: PRK09265 554290001749 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 554290001750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001751 homodimer interface [polypeptide binding]; other site 554290001752 catalytic residue [active] 554290001753 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 554290001754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290001755 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 554290001756 putative dimerization interface [polypeptide binding]; other site 554290001757 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 554290001758 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 554290001759 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 554290001760 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 554290001761 NADH dehydrogenase subunit D; Validated; Region: PRK06075 554290001762 NADH dehydrogenase subunit E; Validated; Region: PRK07539 554290001763 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 554290001764 putative dimer interface [polypeptide binding]; other site 554290001765 [2Fe-2S] cluster binding site [ion binding]; other site 554290001766 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 554290001767 SLBB domain; Region: SLBB; pfam10531 554290001768 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 554290001769 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 554290001770 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 554290001771 catalytic loop [active] 554290001772 iron binding site [ion binding]; other site 554290001773 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 554290001774 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 554290001775 [4Fe-4S] binding site [ion binding]; other site 554290001776 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 554290001777 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 554290001778 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 554290001779 4Fe-4S binding domain; Region: Fer4; pfam00037 554290001780 4Fe-4S binding domain; Region: Fer4; pfam00037 554290001781 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 554290001782 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 554290001783 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 554290001784 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 554290001785 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 554290001786 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 554290001787 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 554290001788 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 554290001789 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 554290001790 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 554290001791 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 554290001792 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 554290001793 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 554290001794 active site 554290001795 phosphorylation site [posttranslational modification] 554290001796 intermolecular recognition site; other site 554290001797 dimerization interface [polypeptide binding]; other site 554290001798 ribonuclease BN; Region: true_RNase_BN; TIGR02649 554290001799 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290001800 Coenzyme A binding pocket [chemical binding]; other site 554290001801 hypothetical protein; Provisional; Region: PRK10404 554290001802 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 554290001803 isochorismate synthases; Region: isochor_syn; TIGR00543 554290001804 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 554290001805 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 554290001806 dimer interface [polypeptide binding]; other site 554290001807 tetramer interface [polypeptide binding]; other site 554290001808 PYR/PP interface [polypeptide binding]; other site 554290001809 TPP binding site [chemical binding]; other site 554290001810 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 554290001811 TPP-binding site; other site 554290001812 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 554290001813 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 554290001814 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 554290001815 substrate binding site [chemical binding]; other site 554290001816 oxyanion hole (OAH) forming residues; other site 554290001817 trimer interface [polypeptide binding]; other site 554290001818 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 554290001819 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 554290001820 active site 554290001821 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 554290001822 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 554290001823 acyl-activating enzyme (AAE) consensus motif; other site 554290001824 putative AMP binding site [chemical binding]; other site 554290001825 putative active site [active] 554290001826 putative CoA binding site [chemical binding]; other site 554290001827 signal transduction protein PmrD; Provisional; Region: PRK15450 554290001828 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 554290001829 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 554290001830 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 554290001831 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 554290001832 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 554290001833 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 554290001834 putative active site [active] 554290001835 putative catalytic site [active] 554290001836 putative Zn binding site [ion binding]; other site 554290001837 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 554290001838 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 554290001839 active site 554290001840 substrate binding site [chemical binding]; other site 554290001841 cosubstrate binding site; other site 554290001842 catalytic site [active] 554290001843 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 554290001844 active site 554290001845 hexamer interface [polypeptide binding]; other site 554290001846 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 554290001847 NAD binding site [chemical binding]; other site 554290001848 substrate binding site [chemical binding]; other site 554290001849 active site 554290001850 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 554290001851 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 554290001852 Ligand binding site; other site 554290001853 Putative Catalytic site; other site 554290001854 DXD motif; other site 554290001855 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 554290001856 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 554290001857 inhibitor-cofactor binding pocket; inhibition site 554290001858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290001859 catalytic residue [active] 554290001860 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 554290001861 catalytic core [active] 554290001862 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 554290001863 YfaZ precursor; Region: YfaZ; pfam07437 554290001864 hypothetical protein; Provisional; Region: PRK03673 554290001865 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 554290001866 putative MPT binding site; other site 554290001867 Competence-damaged protein; Region: CinA; cl00666 554290001868 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 554290001869 Transcriptional regulator [Transcription]; Region: IclR; COG1414 554290001870 Bacterial transcriptional regulator; Region: IclR; pfam01614 554290001871 L-rhamnonate dehydratase; Provisional; Region: PRK15440 554290001872 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 554290001873 putative active site pocket [active] 554290001874 putative metal binding site [ion binding]; other site 554290001875 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 554290001876 D-galactonate transporter; Region: 2A0114; TIGR00893 554290001877 putative substrate translocation pore; other site 554290001878 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 554290001879 conserved hypothetical protein (pseudogene);similar to Salmonella typhi CT18 conserved hypothetical protein 554290001880 deubiquitinase SseL; Provisional; Region: PRK14848 554290001881 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 554290001882 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 554290001883 Cysteine-rich domain; Region: CCG; pfam02754 554290001884 Cysteine-rich domain; Region: CCG; pfam02754 554290001885 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 554290001886 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 554290001887 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 554290001888 hydroxyglutarate oxidase; Provisional; Region: PRK11728 554290001889 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 554290001890 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 554290001891 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 554290001892 putative substrate translocation pore; other site 554290001893 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 554290001894 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 554290001895 active site 554290001896 catalytic site [active] 554290001897 metal binding site [ion binding]; metal-binding site 554290001898 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 554290001899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290001900 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 554290001901 dimerization interface [polypeptide binding]; other site 554290001902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290001903 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 554290001904 putative substrate translocation pore; other site 554290001905 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 554290001906 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 554290001907 catalytic loop [active] 554290001908 iron binding site [ion binding]; other site 554290001909 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 554290001910 dimer interface [polypeptide binding]; other site 554290001911 putative radical transfer pathway; other site 554290001912 diiron center [ion binding]; other site 554290001913 tyrosyl radical; other site 554290001914 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 554290001915 ATP cone domain; Region: ATP-cone; pfam03477 554290001916 Class I ribonucleotide reductase; Region: RNR_I; cd01679 554290001917 active site 554290001918 dimer interface [polypeptide binding]; other site 554290001919 catalytic residues [active] 554290001920 effector binding site; other site 554290001921 R2 peptide binding site; other site 554290001922 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 554290001923 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 554290001924 S-adenosylmethionine binding site [chemical binding]; other site 554290001925 Transcriptional regulators [Transcription]; Region: GntR; COG1802 554290001926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290001927 DNA-binding site [nucleotide binding]; DNA binding site 554290001928 FCD domain; Region: FCD; pfam07729 554290001929 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 554290001930 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 554290001931 putative substrate translocation pore; other site 554290001932 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 554290001933 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 554290001934 active site pocket [active] 554290001935 DNA gyrase subunit A; Validated; Region: PRK05560 554290001936 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 554290001937 CAP-like domain; other site 554290001938 active site 554290001939 primary dimer interface [polypeptide binding]; other site 554290001940 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001941 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001942 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001943 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001944 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001945 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290001946 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 554290001947 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 554290001948 dimer interface [polypeptide binding]; other site 554290001949 phosphorylation site [posttranslational modification] 554290001950 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 554290001951 ATP binding site [chemical binding]; other site 554290001952 Mg2+ binding site [ion binding]; other site 554290001953 G-X-G motif; other site 554290001954 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 554290001955 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 554290001956 active site 554290001957 phosphorylation site [posttranslational modification] 554290001958 intermolecular recognition site; other site 554290001959 dimerization interface [polypeptide binding]; other site 554290001960 transcriptional regulator RcsB; Provisional; Region: PRK10840 554290001961 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 554290001962 active site 554290001963 phosphorylation site [posttranslational modification] 554290001964 intermolecular recognition site; other site 554290001965 dimerization interface [polypeptide binding]; other site 554290001966 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 554290001967 DNA binding residues [nucleotide binding] 554290001968 dimerization interface [polypeptide binding]; other site 554290001969 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 554290001970 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 554290001971 ATP binding site [chemical binding]; other site 554290001972 G-X-G motif; other site 554290001973 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 554290001974 putative binding surface; other site 554290001975 active site 554290001976 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290001977 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 554290001978 trimer interface [polypeptide binding]; other site 554290001979 eyelet of channel; other site 554290001980 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 554290001981 ApbE family; Region: ApbE; pfam02424 554290001982 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 554290001983 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 554290001984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290001985 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 554290001986 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 554290001987 DNA binding site [nucleotide binding] 554290001988 active site 554290001989 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 554290001990 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 554290001991 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 554290001992 Walker A/P-loop; other site 554290001993 ATP binding site [chemical binding]; other site 554290001994 Q-loop/lid; other site 554290001995 ABC transporter signature motif; other site 554290001996 Walker B; other site 554290001997 D-loop; other site 554290001998 H-loop/switch region; other site 554290001999 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 554290002000 secondary substrate binding site; other site 554290002001 primary substrate binding site; other site 554290002002 inhibition loop; other site 554290002003 dimerization interface [polypeptide binding]; other site 554290002004 ferredoxin-type protein; Provisional; Region: PRK10194 554290002005 4Fe-4S binding domain; Region: Fer4; cl02805 554290002006 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 554290002007 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 554290002008 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 554290002009 [4Fe-4S] binding site [ion binding]; other site 554290002010 molybdopterin cofactor binding site; other site 554290002011 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 554290002012 molybdopterin cofactor binding site; other site 554290002013 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 554290002014 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 554290002015 4Fe-4S binding domain; Region: Fer4_5; pfam12801 554290002016 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 554290002017 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 554290002018 cytochrome c-type protein NapC; Provisional; Region: PRK10617 554290002019 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 554290002020 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 554290002021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290002022 Walker A/P-loop; other site 554290002023 ATP binding site [chemical binding]; other site 554290002024 Q-loop/lid; other site 554290002025 ABC transporter signature motif; other site 554290002026 Walker B; other site 554290002027 D-loop; other site 554290002028 H-loop/switch region; other site 554290002029 heme exporter protein CcmC; Region: ccmC; TIGR01191 554290002030 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 554290002031 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13150 554290002032 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 554290002033 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 554290002034 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 554290002035 catalytic residues [active] 554290002036 central insert; other site 554290002037 'Pseudogene due to 88bp deletion, relative to Paratyphi A strain ATCC9150 (SPA0617)' 554290002038 transcriptional regulator NarP; Provisional; Region: PRK10403 554290002039 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 554290002040 active site 554290002041 phosphorylation site [posttranslational modification] 554290002042 intermolecular recognition site; other site 554290002043 dimerization interface [polypeptide binding]; other site 554290002044 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 554290002045 DNA binding residues [nucleotide binding] 554290002046 dimerization interface [polypeptide binding]; other site 554290002047 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 554290002048 DinI-like family; Region: DinI; cl11630 554290002049 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 554290002050 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 554290002051 Sulfatase; Region: Sulfatase; cl17466 554290002052 hypothetical protein; Provisional; Region: PRK13689 554290002053 Nucleoid-associated protein [General function prediction only]; Region: COG3081 554290002054 nucleoid-associated protein NdpA; Validated; Region: PRK00378 554290002055 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 554290002056 5S rRNA interface [nucleotide binding]; other site 554290002057 CTC domain interface [polypeptide binding]; other site 554290002058 L16 interface [polypeptide binding]; other site 554290002059 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 554290002060 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 554290002061 ATP binding site [chemical binding]; other site 554290002062 putative Mg++ binding site [ion binding]; other site 554290002063 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 554290002064 nucleotide binding region [chemical binding]; other site 554290002065 ATP-binding site [chemical binding]; other site 554290002066 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 554290002067 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 554290002068 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 554290002069 RNA binding surface [nucleotide binding]; other site 554290002070 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 554290002071 active site 554290002072 uracil binding [chemical binding]; other site 554290002073 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 554290002074 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 554290002075 putative substrate translocation pore; other site 554290002076 hypothetical protein; Provisional; Region: PRK11835 554290002077 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 554290002078 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290002079 Walker A/P-loop; other site 554290002080 ATP binding site [chemical binding]; other site 554290002081 Q-loop/lid; other site 554290002082 ABC transporter signature motif; other site 554290002083 Walker B; other site 554290002084 D-loop; other site 554290002085 H-loop/switch region; other site 554290002086 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 554290002087 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290002088 Walker A/P-loop; other site 554290002089 ATP binding site [chemical binding]; other site 554290002090 Q-loop/lid; other site 554290002091 ABC transporter signature motif; other site 554290002092 Walker B; other site 554290002093 D-loop; other site 554290002094 H-loop/switch region; other site 554290002095 microcin C ABC transporter permease; Provisional; Region: PRK15021 554290002096 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 554290002097 dimer interface [polypeptide binding]; other site 554290002098 conserved gate region; other site 554290002099 ABC-ATPase subunit interface; other site 554290002100 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 554290002101 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 554290002102 dimer interface [polypeptide binding]; other site 554290002103 conserved gate region; other site 554290002104 putative PBP binding loops; other site 554290002105 ABC-ATPase subunit interface; other site 554290002106 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 554290002107 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 554290002108 phage resistance protein; Provisional; Region: PRK10551 554290002109 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 554290002110 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 554290002111 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 554290002112 NlpC/P60 family; Region: NLPC_P60; pfam00877 554290002113 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 554290002114 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 554290002115 active site 554290002116 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 554290002117 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 554290002118 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 554290002119 elongation factor P; Provisional; Region: PRK04542 554290002120 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 554290002121 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 554290002122 RNA binding site [nucleotide binding]; other site 554290002123 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 554290002124 RNA binding site [nucleotide binding]; other site 554290002125 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 554290002126 sugar efflux transporter B; Provisional; Region: PRK15011 554290002127 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 554290002128 putative substrate translocation pore; other site 554290002129 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 554290002130 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 554290002131 active site 554290002132 phosphorylation site [posttranslational modification] 554290002133 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 554290002134 dimerization domain swap beta strand [polypeptide binding]; other site 554290002135 regulatory protein interface [polypeptide binding]; other site 554290002136 active site 554290002137 regulatory phosphorylation site [posttranslational modification]; other site 554290002138 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 554290002139 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 554290002140 putative substrate binding site [chemical binding]; other site 554290002141 putative ATP binding site [chemical binding]; other site 554290002142 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 554290002143 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 554290002144 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 554290002145 active site 554290002146 P-loop; other site 554290002147 phosphorylation site [posttranslational modification] 554290002148 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 554290002149 endonuclease IV; Provisional; Region: PRK01060 554290002150 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 554290002151 AP (apurinic/apyrimidinic) site pocket; other site 554290002152 DNA interaction; other site 554290002153 Metal-binding active site; metal-binding site 554290002154 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 554290002155 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 554290002156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290002157 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 554290002158 putative dimerization interface [polypeptide binding]; other site 554290002159 lysine transporter; Provisional; Region: PRK10836 554290002160 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 554290002161 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 554290002162 N-terminal plug; other site 554290002163 ligand-binding site [chemical binding]; other site 554290002164 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 554290002165 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 554290002166 putative substrate translocation pore; other site 554290002167 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 554290002168 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 554290002169 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 554290002170 motif II; other site 554290002172 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 554290002173 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 554290002174 non-specific DNA binding site [nucleotide binding]; other site 554290002175 salt bridge; other site 554290002176 sequence-specific DNA binding site [nucleotide binding]; other site 554290002177 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 554290002178 S-formylglutathione hydrolase; Region: PLN02442 554290002179 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 554290002180 GTP cyclohydrolase I; Provisional; Region: PLN03044 554290002181 active site 554290002182 Predicted membrane protein [Function unknown]; Region: COG2311 554290002183 hypothetical protein; Provisional; Region: PRK10835 554290002184 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 554290002185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290002186 DNA binding site [nucleotide binding] 554290002187 domain linker motif; other site 554290002188 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 554290002189 dimerization interface (closed form) [polypeptide binding]; other site 554290002190 ligand binding site [chemical binding]; other site 554290002191 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 554290002192 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 554290002193 ligand binding site [chemical binding]; other site 554290002194 calcium binding site [ion binding]; other site 554290002196 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 554290002197 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 554290002198 TM-ABC transporter signature motif; other site 554290002199 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 554290002200 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 554290002201 homodimer interface [polypeptide binding]; other site 554290002202 active site 554290002203 FMN binding site [chemical binding]; other site 554290002204 substrate binding site [chemical binding]; other site 554290002205 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 554290002206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 554290002207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290002208 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 554290002209 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 554290002210 putative active site [active] 554290002211 cytidine deaminase; Provisional; Region: PRK09027 554290002212 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 554290002213 active site 554290002214 catalytic motif [active] 554290002215 Zn binding site [ion binding]; other site 554290002216 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 554290002217 active site 554290002218 catalytic motif [active] 554290002219 Zn binding site [ion binding]; other site 554290002220 hypothetical protein; Provisional; Region: PRK10711 554290002221 hypothetical protein; Provisional; Region: PRK01821 554290002222 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 554290002223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290002224 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 554290002225 dimerization interface [polypeptide binding]; other site 554290002226 benzoate transport; Region: 2A0115; TIGR00895 554290002227 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 554290002228 putative substrate translocation pore; other site 554290002229 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 554290002230 Cupin domain; Region: Cupin_2; pfam07883 554290002231 Cupin domain; Region: Cupin_2; pfam07883 554290002232 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 554290002233 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 554290002234 GST_N family, Class Zeta 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_Zeta; cd03042 554290002235 maleylacetoacetate isomerase; Region: maiA; TIGR01262 554290002236 C-terminal domain interface [polypeptide binding]; other site 554290002237 GSH binding site (G-site) [chemical binding]; other site 554290002238 putative dimer interface [polypeptide binding]; other site 554290002239 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 554290002240 dimer interface [polypeptide binding]; other site 554290002241 N-terminal domain interface [polypeptide binding]; other site 554290002242 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 554290002243 salicylate hydroxylase; Provisional; Region: PRK08163 554290002244 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 554290002245 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 554290002246 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 554290002247 FMN binding site [chemical binding]; other site 554290002248 active site 554290002249 catalytic residues [active] 554290002250 substrate binding site [chemical binding]; other site 554290002251 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 554290002252 oxidoreductase; Provisional; Region: PRK12743 554290002253 classical (c) SDRs; Region: SDR_c; cd05233 554290002254 NAD(P) binding site [chemical binding]; other site 554290002255 active site 554290002256 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 554290002257 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 554290002258 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 554290002259 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 554290002260 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 554290002261 D-lactate dehydrogenase; Provisional; Region: PRK11183 554290002262 FAD binding domain; Region: FAD_binding_4; pfam01565 554290002263 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 554290002264 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 554290002265 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 554290002266 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 554290002267 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 554290002268 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 554290002269 dimer interface [polypeptide binding]; other site 554290002270 conserved gate region; other site 554290002271 ABC-ATPase subunit interface; other site 554290002272 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 554290002273 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 554290002274 Walker A/P-loop; other site 554290002275 ATP binding site [chemical binding]; other site 554290002276 Q-loop/lid; other site 554290002277 ABC transporter signature motif; other site 554290002278 Walker B; other site 554290002279 D-loop; other site 554290002280 H-loop/switch region; other site 554290002281 CBS domain; Region: CBS; pfam00571 554290002282 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 554290002283 putative PBP binding loops; other site 554290002284 ABC-ATPase subunit interface; other site 554290002285 hypothetical protein; Provisional; Region: PRK13681 554290002286 transcriptional regulator MirA; Provisional; Region: PRK15043 554290002287 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 554290002288 DNA binding residues [nucleotide binding] 554290002289 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 554290002290 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 554290002291 GAF domain; Region: GAF; pfam01590 554290002292 Histidine kinase; Region: His_kinase; pfam06580 554290002293 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 554290002294 ATP binding site [chemical binding]; other site 554290002295 Mg2+ binding site [ion binding]; other site 554290002296 G-X-G motif; other site 554290002297 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 554290002298 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 554290002299 active site 554290002300 phosphorylation site [posttranslational modification] 554290002301 intermolecular recognition site; other site 554290002302 dimerization interface [polypeptide binding]; other site 554290002303 LytTr DNA-binding domain; Region: LytTR; pfam04397 554290002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 554290002305 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 554290002306 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 554290002307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 554290002308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 554290002309 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 554290002310 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 554290002311 active site 554290002312 HIGH motif; other site 554290002313 KMSKS motif; other site 554290002314 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 554290002315 tRNA binding surface [nucleotide binding]; other site 554290002316 anticodon binding site; other site 554290002317 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 554290002318 dimer interface [polypeptide binding]; other site 554290002319 putative tRNA-binding site [nucleotide binding]; other site 554290002320 antiporter inner membrane protein; Provisional; Region: PRK11670 554290002321 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 554290002322 Walker A motif; other site 554290002323 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 554290002324 fimbrial chaperone protein; Provisional; Region: PRK15220 554290002325 fimbrial chaperone protein PegB; Provisional; Region: PRK15218 554290002326 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290002327 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 554290002328 PapC N-terminal domain; Region: PapC_N; pfam13954 554290002329 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290002330 PapC C-terminal domain; Region: PapC_C; pfam13953 554290002331 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 554290002332 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 554290002333 Predicted integral membrane protein [Function unknown]; Region: COG5455 554290002334 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 554290002335 substrate binding site [chemical binding]; other site 554290002336 multimerization interface [polypeptide binding]; other site 554290002337 ATP binding site [chemical binding]; other site 554290002338 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 554290002339 dimer interface [polypeptide binding]; other site 554290002340 substrate binding site [chemical binding]; other site 554290002341 ATP binding site [chemical binding]; other site 554290002342 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 554290002343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290002344 DNA-binding site [nucleotide binding]; DNA binding site 554290002345 UTRA domain; Region: UTRA; pfam07702 554290002346 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290002347 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 554290002348 substrate binding site [chemical binding]; other site 554290002349 ATP binding site [chemical binding]; other site 554290002350 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 554290002351 nucleoside transporter; Region: 2A0110; TIGR00889 554290002352 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 554290002353 putative substrate translocation pore; other site 554290002354 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 554290002355 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 554290002356 putative active site; other site 554290002357 catalytic residue [active] 554290002358 lipid kinase; Reviewed; Region: PRK13054 554290002359 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 554290002360 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 554290002361 type III secretion system protein; Provisional; Region: PRK15384; cl14665 554290002362 putative protease; Provisional; Region: PRK15452 554290002363 Peptidase family U32; Region: Peptidase_U32; pfam01136 554290002365 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 554290002366 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 554290002367 Tetratricopeptide repeat; Region: TPR_12; pfam13424 554290002368 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 554290002369 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 554290002370 PcfJ-like protein; Region: PcfJ; pfam14284 554290002371 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 554290002372 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 554290002373 active site 554290002374 phosphorylation site [posttranslational modification] 554290002375 intermolecular recognition site; other site 554290002376 dimerization interface [polypeptide binding]; other site 554290002377 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 554290002378 DNA binding site [nucleotide binding] 554290002379 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 554290002380 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 554290002381 dimerization interface [polypeptide binding]; other site 554290002382 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 554290002383 dimer interface [polypeptide binding]; other site 554290002384 phosphorylation site [posttranslational modification] 554290002385 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 554290002386 ATP binding site [chemical binding]; other site 554290002387 Mg2+ binding site [ion binding]; other site 554290002388 G-X-G motif; other site 554290002389 putative transporter; Provisional; Region: PRK10504 554290002390 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 554290002391 putative substrate translocation pore; other site 554290002392 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 554290002393 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 554290002394 Protein export membrane protein; Region: SecD_SecF; cl14618 554290002395 putative chaperone; Provisional; Region: PRK11678 554290002396 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 554290002397 nucleotide binding site [chemical binding]; other site 554290002398 putative NEF/HSP70 interaction site [polypeptide binding]; other site 554290002399 SBD interface [polypeptide binding]; other site 554290002400 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 554290002401 AlkA N-terminal domain; Region: AlkA_N; pfam06029 554290002402 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 554290002403 minor groove reading motif; other site 554290002404 helix-hairpin-helix signature motif; other site 554290002405 substrate binding pocket [chemical binding]; other site 554290002406 active site 554290002407 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 554290002408 PAS domain S-box; Region: sensory_box; TIGR00229 554290002409 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 554290002410 putative active site [active] 554290002411 heme pocket [chemical binding]; other site 554290002412 PAS domain S-box; Region: sensory_box; TIGR00229 554290002413 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 554290002414 putative active site [active] 554290002415 heme pocket [chemical binding]; other site 554290002416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290002417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290002418 metal binding site [ion binding]; metal-binding site 554290002419 active site 554290002420 I-site; other site 554290002421 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 554290002422 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 554290002423 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 554290002424 ATP-binding site [chemical binding]; other site 554290002425 Sugar specificity; other site 554290002426 Pyrimidine base specificity; other site 554290002427 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 554290002428 trimer interface [polypeptide binding]; other site 554290002429 active site 554290002430 putative assembly protein; Provisional; Region: PRK10833 554290002431 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 554290002432 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 554290002433 FOG: CBS domain [General function prediction only]; Region: COG0517 554290002434 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 554290002435 Transporter associated domain; Region: CorC_HlyC; smart01091 554290002436 polysaccharide export protein Wza; Provisional; Region: PRK15078 554290002437 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 554290002438 Low molecular weight phosphatase family; Region: LMWPc; cd00115 554290002439 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 554290002440 active site 554290002441 tyrosine kinase; Provisional; Region: PRK11519 554290002442 Chain length determinant protein; Region: Wzz; pfam02706 554290002443 Chain length determinant protein; Region: Wzz; cl15801 554290002444 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 554290002445 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 554290002446 'similar to Salmonella typhi Ty2 hypothetical protein; Pseudogene due to frameshift in homopolymeric tract, resulting in premature stop codon after 255 amino acids. CDS is intact in Paratyphi A strain ATCC9150 (SPA0751).' 554290002447 putative acyl transferase; Provisional; Region: PRK10191 554290002448 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 554290002449 trimer interface [polypeptide binding]; other site 554290002450 active site 554290002451 substrate binding site [chemical binding]; other site 554290002452 CoA binding site [chemical binding]; other site 554290002453 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 554290002454 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 554290002455 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 554290002456 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 554290002457 putative glycosyl transferase; Provisional; Region: PRK10063 554290002458 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 554290002459 metal-binding site 554290002460 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 554290002461 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 554290002462 putative trimer interface [polypeptide binding]; other site 554290002463 putative active site [active] 554290002464 putative substrate binding site [chemical binding]; other site 554290002465 putative CoA binding site [chemical binding]; other site 554290002466 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 554290002467 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 554290002468 NADP-binding site; other site 554290002469 homotetramer interface [polypeptide binding]; other site 554290002470 substrate binding site [chemical binding]; other site 554290002471 homodimer interface [polypeptide binding]; other site 554290002472 active site 554290002473 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 554290002474 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 554290002475 NADP binding site [chemical binding]; other site 554290002476 active site 554290002477 putative substrate binding site [chemical binding]; other site 554290002478 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 554290002479 active site 554290002480 GDP-Mannose binding site [chemical binding]; other site 554290002481 dimer interface [polypeptide binding]; other site 554290002482 modified nudix motif 554290002483 metal binding site [ion binding]; metal-binding site 554290002484 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 554290002485 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 554290002486 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 554290002487 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 554290002488 Substrate binding site; other site 554290002489 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 554290002490 phosphomannomutase CpsG; Provisional; Region: PRK15414 554290002491 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 554290002492 active site 554290002493 substrate binding site [chemical binding]; other site 554290002494 metal binding site [ion binding]; metal-binding site 554290002496 colanic acid exporter; Provisional; Region: PRK10459 554290002497 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 554290002499 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 554290002500 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 554290002501 putative ADP-binding pocket [chemical binding]; other site 554290002502 colanic acid biosynthesis protein WcaM; Region: WcaM; TIGR04004 554290002504 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 554290002505 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 554290002506 NAD binding site [chemical binding]; other site 554290002507 substrate binding site [chemical binding]; other site 554290002508 homodimer interface [polypeptide binding]; other site 554290002509 active site 554290002510 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 554290002511 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 554290002512 NADP binding site [chemical binding]; other site 554290002513 active site 554290002514 putative substrate binding site [chemical binding]; other site 554290002515 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 554290002516 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 554290002517 substrate binding site; other site 554290002518 tetramer interface; other site 554290002519 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 554290002520 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 554290002521 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 554290002522 catalytic loop [active] 554290002523 iron binding site [ion binding]; other site 554290002524 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 554290002525 FAD binding pocket [chemical binding]; other site 554290002526 FAD binding motif [chemical binding]; other site 554290002527 phosphate binding motif [ion binding]; other site 554290002528 beta-alpha-beta structure motif; other site 554290002529 NAD binding pocket [chemical binding]; other site 554290002530 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 554290002531 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 554290002532 substrate binding site; other site 554290002533 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 554290002534 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 554290002535 NAD binding site [chemical binding]; other site 554290002536 homotetramer interface [polypeptide binding]; other site 554290002537 homodimer interface [polypeptide binding]; other site 554290002538 substrate binding site [chemical binding]; other site 554290002539 active site 554290002540 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 554290002541 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 554290002542 inhibitor-cofactor binding pocket; inhibition site 554290002543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290002544 catalytic residue [active] 554290002545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 554290002546 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 554290002547 NAD(P) binding site [chemical binding]; other site 554290002548 active site 554290002549 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 554290002550 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 554290002551 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 554290002552 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 554290002553 active site 554290002554 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 554290002555 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 554290002556 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 554290002557 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 554290002558 active site 554290002559 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 554290002560 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 554290002561 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 554290002562 Substrate binding site; other site 554290002563 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 554290002564 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 554290002565 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 554290002566 active site 554290002567 substrate binding site [chemical binding]; other site 554290002568 metal binding site [ion binding]; metal-binding site 554290002569 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 554290002570 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 554290002571 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 554290002572 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 554290002573 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 554290002574 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 554290002575 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 554290002576 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 554290002577 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 554290002578 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 554290002579 chain length determinant protein WzzB; Provisional; Region: PRK15471 554290002580 Chain length determinant protein; Region: Wzz; cl15801 554290002581 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 554290002582 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 554290002583 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 554290002584 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 554290002585 metal binding site [ion binding]; metal-binding site 554290002586 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 554290002587 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 554290002588 substrate binding site [chemical binding]; other site 554290002589 glutamase interaction surface [polypeptide binding]; other site 554290002590 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 554290002591 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 554290002592 catalytic residues [active] 554290002593 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 554290002594 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 554290002595 putative active site [active] 554290002596 oxyanion strand; other site 554290002597 catalytic triad [active] 554290002598 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 554290002599 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 554290002600 active site 554290002601 motif I; other site 554290002602 motif II; other site 554290002603 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 554290002604 putative active site pocket [active] 554290002605 4-fold oligomerization interface [polypeptide binding]; other site 554290002606 metal binding residues [ion binding]; metal-binding site 554290002607 3-fold/trimer interface [polypeptide binding]; other site 554290002608 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 554290002609 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 554290002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290002611 homodimer interface [polypeptide binding]; other site 554290002612 catalytic residue [active] 554290002613 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 554290002614 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 554290002615 NAD binding site [chemical binding]; other site 554290002616 dimerization interface [polypeptide binding]; other site 554290002617 product binding site; other site 554290002618 substrate binding site [chemical binding]; other site 554290002619 zinc binding site [ion binding]; other site 554290002620 catalytic residues [active] 554290002621 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 554290002622 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 554290002623 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 554290002624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 554290002625 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 554290002626 putative NAD(P) binding site [chemical binding]; other site 554290002627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290002628 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 554290002629 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 554290002630 dimerization interface [polypeptide binding]; other site 554290002631 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 554290002632 exonuclease I; Provisional; Region: sbcB; PRK11779 554290002633 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 554290002634 active site 554290002635 catalytic site [active] 554290002636 substrate binding site [chemical binding]; other site 554290002637 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 554290002640 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 554290002641 4Fe-4S binding domain; Region: Fer4; cl02805 554290002642 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 554290002643 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 554290002645 DNA gyrase inhibitor; Provisional; Region: PRK10016 554290002646 Predicted membrane protein [Function unknown]; Region: COG1289 554290002647 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 554290002648 hypothetical protein; Provisional; Region: PRK05423 554290002649 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 554290002650 propionate kinase; Reviewed; Region: PRK12397 554290002651 propionate/acetate kinase; Provisional; Region: PRK12379 554290002652 Ethanolamine utilisation - propanediol utilisation; Region: PduV-EutP; pfam10662 554290002653 G3 box; other site 554290002654 Switch II region; other site 554290002655 GTP/Mg2+ binding site [chemical binding]; other site 554290002656 G4 box; other site 554290002657 G5 box; other site 554290002658 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 554290002659 putative hexamer interface [polypeptide binding]; other site 554290002660 putative hexagonal pore; other site 554290002661 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 554290002662 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 554290002663 putative hexamer interface [polypeptide binding]; other site 554290002664 putative hexagonal pore; other site 554290002665 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 554290002666 putative hexamer interface [polypeptide binding]; other site 554290002667 putative hexagonal pore; other site 554290002668 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 554290002669 SLBB domain; Region: SLBB; pfam10531 554290002670 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 554290002671 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 554290002672 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 554290002673 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 554290002674 putative active site [active] 554290002675 metal binding site [ion binding]; metal-binding site 554290002676 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 554290002677 putative catalytic cysteine [active] 554290002678 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 554290002679 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 554290002680 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 554290002681 Hexamer/Pentamer interface [polypeptide binding]; other site 554290002682 central pore; other site 554290002683 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 554290002684 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 554290002685 Propanediol utilisation protein PduL; Region: PduL; pfam06130 554290002686 Propanediol utilisation protein PduL; Region: PduL; pfam06130 554290002687 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 554290002688 1,2-propanediol utilization protein K (PduK), Bacterial Micro-Compartment (BMC) domain repeat 1l; Region: BMC_PduK; cd07056 554290002689 putative hexamer interface [polypeptide binding]; other site 554290002690 putative hexagonal pore; other site 554290002691 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 554290002692 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 554290002693 Hexamer interface [polypeptide binding]; other site 554290002694 Putative hexagonal pore residue; other site 554290002695 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 554290002696 'similar to Salmonella typhi CT18 PduG protein; Pseudogene in Sanger sequence but not McClelland sequence, due to deletion of 171nt (57aa) in Sanger sequence' 554290002697 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 554290002698 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 554290002699 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 554290002700 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 554290002701 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 554290002702 alpha-beta subunit interface [polypeptide binding]; other site 554290002703 alpha-gamma subunit interface [polypeptide binding]; other site 554290002704 active site 554290002705 substrate and K+ binding site; other site 554290002706 K+ binding site [ion binding]; other site 554290002707 cobalamin binding site [chemical binding]; other site 554290002708 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 554290002709 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 554290002710 putative hexamer interface [polypeptide binding]; other site 554290002711 putative hexagonal pore; other site 554290002712 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 554290002713 putative hexamer interface [polypeptide binding]; other site 554290002714 putative hexagonal pore; other site 554290002715 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 554290002716 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 554290002717 Hexamer interface [polypeptide binding]; other site 554290002718 Putative hexagonal pore residue; other site 554290002719 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 554290002720 amphipathic channel; other site 554290002721 Asn-Pro-Ala signature motifs; other site 554290002722 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 554290002723 Sensory domain found in PocR; Region: PocR; pfam10114 554290002724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290002725 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290002726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290002727 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 554290002728 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 554290002729 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 554290002730 catalytic triad [active] 554290002731 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 554290002732 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 554290002733 Precorrin-8X methylmutase; Region: CbiC; pfam02570 554290002734 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 554290002735 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 554290002736 active site 554290002737 putative homodimer interface [polypeptide binding]; other site 554290002738 SAM binding site [chemical binding]; other site 554290002739 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 554290002740 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 554290002741 S-adenosylmethionine binding site [chemical binding]; other site 554290002742 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 554290002743 active site 554290002744 SAM binding site [chemical binding]; other site 554290002745 homodimer interface [polypeptide binding]; other site 554290002746 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 554290002747 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 554290002748 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 554290002749 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 554290002750 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 554290002751 active site 554290002752 SAM binding site [chemical binding]; other site 554290002753 homodimer interface [polypeptide binding]; other site 554290002754 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 554290002755 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 554290002756 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 554290002757 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 554290002758 active site 554290002759 C-terminal domain interface [polypeptide binding]; other site 554290002760 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 554290002761 active site 554290002762 N-terminal domain interface [polypeptide binding]; other site 554290002763 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 554290002764 active site 554290002765 SAM binding site [chemical binding]; other site 554290002766 homodimer interface [polypeptide binding]; other site 554290002767 cobalt transport protein CbiM; Validated; Region: PRK08319 554290002768 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 554290002769 cobalt transport protein CbiN; Provisional; Region: PRK02898 554290002770 cobalt transport protein CbiQ; Provisional; Region: PRK15485 554290002771 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 554290002772 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 554290002773 Walker A/P-loop; other site 554290002774 ATP binding site [chemical binding]; other site 554290002775 Q-loop/lid; other site 554290002776 ABC transporter signature motif; other site 554290002777 Walker B; other site 554290002778 D-loop; other site 554290002779 H-loop/switch region; other site 554290002780 cobyric acid synthase; Provisional; Region: PRK00784 554290002781 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 554290002782 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 554290002783 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 554290002784 catalytic triad [active] 554290002785 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 554290002786 homotrimer interface [polypeptide binding]; other site 554290002787 Walker A motif; other site 554290002788 GTP binding site [chemical binding]; other site 554290002789 Walker B motif; other site 554290002790 cobalamin synthase; Reviewed; Region: cobS; PRK00235 554290002791 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 554290002792 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 554290002793 putative dimer interface [polypeptide binding]; other site 554290002794 active site pocket [active] 554290002795 putative cataytic base [active] 554290002796 L,D-transpeptidase; Provisional; Region: PRK10190 554290002797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290002798 MATE family multidrug exporter; Provisional; Region: PRK10189 554290002799 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 554290002800 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 554290002801 AMP nucleosidase; Provisional; Region: PRK08292 554290002802 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 554290002803 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 554290002804 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 554290002805 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 554290002806 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 554290002807 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 554290002808 Catalytic site [active] 554290002809 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 554290002810 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 554290002811 active site 554290002812 DNA binding site [nucleotide binding] 554290002813 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 554290002814 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 554290002815 DNA-binding site [nucleotide binding]; DNA binding site 554290002816 RNA-binding motif; other site 554290002817 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290002818 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 554290002819 trimer interface [polypeptide binding]; other site 554290002820 eyelet of channel; other site 554290002822 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 554290002823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 554290002824 Zn2+ binding site [ion binding]; other site 554290002825 Mg2+ binding site [ion binding]; other site 554290002826 DNA cytosine methylase; Provisional; Region: PRK10458 554290002827 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 554290002828 cofactor binding site; other site 554290002829 DNA binding site [nucleotide binding] 554290002830 substrate interaction site [chemical binding]; other site 554290002831 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 554290002832 additional DNA contacts [nucleotide binding]; other site 554290002833 mismatch recognition site; other site 554290002834 active site 554290002835 zinc binding site [ion binding]; other site 554290002836 DNA intercalation site [nucleotide binding]; other site 554290002837 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 554290002838 EamA-like transporter family; Region: EamA; pfam00892 554290002839 EamA-like transporter family; Region: EamA; pfam00892 554290002840 hypothetical protein; Provisional; Region: PRK10062 554290002841 Uncharacterized small protein [Function unknown]; Region: COG5475 554290002842 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 554290002843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290002844 metal binding site [ion binding]; metal-binding site 554290002845 active site 554290002846 I-site; other site 554290002847 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 554290002848 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 554290002849 active site 554290002850 motif I; other site 554290002851 motif II; other site 554290002852 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 554290002853 hypothetical protein; Provisional; Region: PRK10708 554290002854 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 554290002855 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 554290002856 DNA binding residues [nucleotide binding] 554290002857 dimerization interface [polypeptide binding]; other site 554290002858 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 554290002859 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 554290002860 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 554290002861 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 554290002862 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 554290002863 flagellar motor switch protein; Validated; Region: fliN; PRK05698 554290002864 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 554290002865 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 554290002866 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 554290002867 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 554290002868 flagellar hook-length control protein; Provisional; Region: PRK10118 554290002869 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 554290002870 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 554290002871 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 554290002872 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 554290002873 Walker A motif/ATP binding site; other site 554290002874 Walker B motif; other site 554290002875 flagellar assembly protein H; Validated; Region: fliH; PRK05687 554290002876 Flagellar assembly protein FliH; Region: FliH; pfam02108 554290002877 flagellar motor switch protein FliG; Region: fliG; TIGR00207 554290002878 FliG C-terminal domain; Region: FliG_C; pfam01706 554290002879 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 554290002880 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 554290002881 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 554290002882 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 554290002883 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 554290002884 CPxP motif; other site 554290002885 putative inner membrane protein; Provisional; Region: PRK11099 554290002886 lipoprotein; Provisional; Region: PRK10397 554290002887 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 554290002888 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 554290002889 active site 554290002890 Na/Ca binding site [ion binding]; other site 554290002891 catalytic site [active] 554290002892 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 554290002893 flagellar protein FliS; Validated; Region: fliS; PRK05685 554290002894 flagellar capping protein; Reviewed; Region: fliD; PRK08032 554290002895 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 554290002896 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 554290002897 flagellin; Validated; Region: PRK08026 554290002898 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 554290002899 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 554290002901 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 554290002902 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 554290002903 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 554290002904 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 554290002905 DNA binding residues [nucleotide binding] 554290002906 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 554290002907 cystine transporter subunit; Provisional; Region: PRK11260 554290002908 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 554290002909 substrate binding pocket [chemical binding]; other site 554290002910 membrane-bound complex binding site; other site 554290002911 hinge residues; other site 554290002912 D-cysteine desulfhydrase; Validated; Region: PRK03910 554290002913 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 554290002914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290002915 catalytic residue [active] 554290002916 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290002917 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 554290002918 dimer interface [polypeptide binding]; other site 554290002919 conserved gate region; other site 554290002920 putative PBP binding loops; other site 554290002921 ABC-ATPase subunit interface; other site 554290002922 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 554290002923 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 554290002924 Walker A/P-loop; other site 554290002925 ATP binding site [chemical binding]; other site 554290002926 Q-loop/lid; other site 554290002927 ABC transporter signature motif; other site 554290002928 Walker B; other site 554290002929 D-loop; other site 554290002930 H-loop/switch region; other site 554290002931 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 554290002932 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 554290002933 Autoinducer binding domain; Region: Autoind_bind; pfam03472 554290002934 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 554290002935 DNA binding residues [nucleotide binding] 554290002936 dimerization interface [polypeptide binding]; other site 554290002937 hypothetical protein; Provisional; Region: PRK10613 554290002938 response regulator; Provisional; Region: PRK09483 554290002939 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 554290002940 active site 554290002941 phosphorylation site [posttranslational modification] 554290002942 intermolecular recognition site; other site 554290002943 dimerization interface [polypeptide binding]; other site 554290002944 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 554290002945 DNA binding residues [nucleotide binding] 554290002946 dimerization interface [polypeptide binding]; other site 554290002947 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 554290002948 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 554290002949 GIY-YIG motif/motif A; other site 554290002950 active site 554290002951 catalytic site [active] 554290002952 putative DNA binding site [nucleotide binding]; other site 554290002953 metal binding site [ion binding]; metal-binding site 554290002954 UvrB/uvrC motif; Region: UVR; pfam02151 554290002955 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 554290002956 Helix-hairpin-helix motif; Region: HHH; pfam00633 554290002957 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 554290002958 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 554290002959 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 554290002960 NlpC/P60 family; Region: NLPC_P60; cl17555 554290002961 glucose-6-phosphate 1-dehydrogenase; Region: PLN02640 554290002962 hypothetical protein; Provisional; Region: PRK10396 554290002963 yecA family protein; Region: ygfB_yecA; TIGR02292 554290002964 SEC-C motif; Region: SEC-C; pfam02810 554290002965 tyrosine transporter TyrP; Provisional; Region: PRK15132 554290002966 aromatic amino acid transport protein; Region: araaP; TIGR00837 554290002967 probable metal-binding protein; Region: matur_matur; TIGR03853 554290002968 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 554290002969 Ferritin-like domain; Region: Ferritin; pfam00210 554290002970 ferroxidase diiron center [ion binding]; other site 554290002971 YecR-like lipoprotein; Region: YecR; pfam13992 554290002972 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 554290002973 Ferritin-like domain; Region: Ferritin; pfam00210 554290002974 ferroxidase diiron center [ion binding]; other site 554290002975 DJ-1 family protein; Region: not_thiJ; TIGR01383 554290002976 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 554290002977 conserved cys residue [active] 554290002978 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 554290002979 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 554290002980 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 554290002981 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 554290002982 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 554290002983 active site 554290002984 homotetramer interface [polypeptide binding]; other site 554290002985 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 554290002986 Ligand Binding Site [chemical binding]; other site 554290002987 transcriptional activator FlhD; Provisional; Region: PRK02909 554290002988 transcriptional activator FlhC; Provisional; Region: PRK12722 554290002989 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 554290002990 flagellar motor protein MotA; Validated; Region: PRK09110 554290002991 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 554290002992 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 554290002993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 554290002994 ligand binding site [chemical binding]; other site 554290002995 chemotaxis protein CheA; Provisional; Region: PRK10547 554290002996 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 554290002997 putative binding surface; other site 554290002998 active site 554290002999 CheY binding; Region: CheY-binding; pfam09078 554290003000 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 554290003001 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 554290003002 ATP binding site [chemical binding]; other site 554290003003 Mg2+ binding site [ion binding]; other site 554290003004 G-X-G motif; other site 554290003005 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 554290003006 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 554290003007 putative CheA interaction surface; other site 554290003009 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 554290003010 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 554290003011 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 554290003012 S-adenosylmethionine binding site [chemical binding]; other site 554290003013 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 554290003014 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 554290003015 active site 554290003016 phosphorylation site [posttranslational modification] 554290003017 intermolecular recognition site; other site 554290003018 dimerization interface [polypeptide binding]; other site 554290003019 CheB methylesterase; Region: CheB_methylest; pfam01339 554290003020 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 554290003021 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 554290003022 active site 554290003023 phosphorylation site [posttranslational modification] 554290003024 intermolecular recognition site; other site 554290003025 dimerization interface [polypeptide binding]; other site 554290003026 chemotaxis regulator CheZ; Provisional; Region: PRK11166 554290003027 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 554290003028 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 554290003029 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 554290003030 FHIPEP family; Region: FHIPEP; pfam00771 554290003031 Flagellar protein FlhE; Region: FlhE; pfam06366 554290003032 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290003033 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 554290003034 penicillin-binding protein 2; Provisional; Region: PRK10795 554290003035 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 554290003036 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 554290003037 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 554290003038 arginyl-tRNA synthetase; Region: argS; TIGR00456 554290003039 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 554290003040 active site 554290003041 HIGH motif; other site 554290003042 KMSK motif region; other site 554290003043 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 554290003044 tRNA binding surface [nucleotide binding]; other site 554290003045 anticodon binding site; other site 554290003046 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 554290003047 putative metal binding site [ion binding]; other site 554290003048 copper homeostasis protein CutC; Provisional; Region: PRK11572 554290003049 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 554290003050 S-adenosylmethionine binding site [chemical binding]; other site 554290003051 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 554290003052 S-adenosylmethionine binding site [chemical binding]; other site 554290003053 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 554290003054 hypothetical protein; Provisional; Region: PRK10302 554290003055 Isochorismatase family; Region: Isochorismatase; pfam00857 554290003056 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 554290003057 catalytic triad [active] 554290003058 conserved cis-peptide bond; other site 554290003059 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 554290003060 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 554290003061 dimer interface [polypeptide binding]; other site 554290003062 anticodon binding site; other site 554290003063 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 554290003064 homodimer interface [polypeptide binding]; other site 554290003065 motif 1; other site 554290003066 active site 554290003067 motif 2; other site 554290003068 GAD domain; Region: GAD; pfam02938 554290003069 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 554290003070 active site 554290003071 motif 3; other site 554290003072 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 554290003073 nudix motif; other site 554290003074 hypothetical protein; Validated; Region: PRK00110 554290003075 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 554290003076 active site 554290003077 putative DNA-binding cleft [nucleotide binding]; other site 554290003078 dimer interface [polypeptide binding]; other site 554290003079 hypothetical protein; Provisional; Region: PRK11470 554290003080 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 554290003081 RuvA N terminal domain; Region: RuvA_N; pfam01330 554290003082 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 554290003083 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 554290003084 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 554290003085 Walker A motif; other site 554290003086 ATP binding site [chemical binding]; other site 554290003087 Walker B motif; other site 554290003088 arginine finger; other site 554290003089 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 554290003090 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 554290003091 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 554290003092 ABC-ATPase subunit interface; other site 554290003093 dimer interface [polypeptide binding]; other site 554290003094 putative PBP binding regions; other site 554290003095 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 554290003096 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 554290003097 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 554290003098 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 554290003099 metal binding site [ion binding]; metal-binding site 554290003100 putative peptidase; Provisional; Region: PRK11649 554290003101 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 554290003102 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290003103 Peptidase family M23; Region: Peptidase_M23; pfam01551 554290003104 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 554290003105 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 554290003106 putative acyl-acceptor binding pocket; other site 554290003107 pyruvate kinase; Provisional; Region: PRK05826 554290003108 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 554290003109 domain interfaces; other site 554290003110 active site 554290003111 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 554290003112 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 554290003113 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 554290003114 putative active site [active] 554290003115 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 554290003116 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 554290003117 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 554290003118 phosphogluconate dehydratase; Validated; Region: PRK09054 554290003119 6-phosphogluconate dehydratase; Region: edd; TIGR01196 554290003120 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 554290003121 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 554290003122 active site 554290003123 intersubunit interface [polypeptide binding]; other site 554290003124 catalytic residue [active] 554290003125 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 554290003126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 554290003127 ATP-grasp domain; Region: ATP-grasp; pfam02222 554290003129 hypothetical protein; Provisional; Region: PRK13680 554290003130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 554290003131 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 554290003132 putative metal binding site [ion binding]; other site 554290003133 protease 2; Provisional; Region: PRK10115 554290003134 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 554290003135 exodeoxyribonuclease X; Provisional; Region: PRK07983 554290003136 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 554290003137 active site 554290003138 catalytic site [active] 554290003139 substrate binding site [chemical binding]; other site 554290003140 Predicted amidohydrolase [General function prediction only]; Region: COG0388 554290003141 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 554290003142 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 554290003143 hypothetical protein; Provisional; Region: PRK10301 554290003144 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 554290003145 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 554290003147 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 554290003148 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 554290003149 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 554290003151 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 554290003152 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 554290003153 substrate binding pocket [chemical binding]; other site 554290003154 membrane-bound complex binding site; other site 554290003155 hinge residues; other site 554290003156 similar to Salmonella typhimurium phage integrase protein; N-terminal truncated 554290003157 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 554290003158 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290003159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290003160 metal binding site [ion binding]; metal-binding site 554290003161 active site 554290003162 I-site; other site 554290003163 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 554290003164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 554290003165 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 554290003166 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 554290003167 EamA-like transporter family; Region: EamA; pfam00892 554290003168 EamA-like transporter family; Region: EamA; pfam00892 554290003169 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 554290003170 DNA binding site [nucleotide binding] 554290003171 active site 554290003172 Int/Topo IB signature motif; other site 554290003174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290003175 Coenzyme A binding pocket [chemical binding]; other site 554290003176 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 554290003177 type III secretion protein SopE2; Provisional; Region: PRK15280 554290003178 Salmonella type III secretion SopE effector N-terminus; Region: SecIII_SopE_N; pfam05364 554290003179 SopE GEF domain; Region: SopE_GEF; pfam07487 554290003180 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 554290003181 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 554290003182 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 554290003183 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 554290003184 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 554290003185 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 554290003186 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 554290003187 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 554290003188 mce related protein; Region: MCE; pfam02470 554290003189 mce related protein; Region: MCE; pfam02470 554290003190 mce related protein; Region: MCE; pfam02470 554290003191 mce related protein; Region: MCE; pfam02470 554290003192 mce related protein; Region: MCE; pfam02470 554290003193 mce related protein; Region: MCE; pfam02470 554290003194 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 554290003195 Paraquat-inducible protein A; Region: PqiA; pfam04403 554290003196 Paraquat-inducible protein A; Region: PqiA; pfam04403 554290003197 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 554290003198 GAF domain; Region: GAF_2; pfam13185 554290003199 ProP expression regulator; Provisional; Region: PRK04950 554290003200 ProQ/FINO family; Region: ProQ; pfam04352 554290003201 carboxy-terminal protease; Provisional; Region: PRK11186 554290003202 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 554290003203 protein binding site [polypeptide binding]; other site 554290003204 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 554290003205 Catalytic dyad [active] 554290003206 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 554290003207 heat shock protein HtpX; Provisional; Region: PRK05457 554290003208 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 554290003209 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290003210 putative substrate translocation pore; other site 554290003211 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 554290003212 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 554290003213 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 554290003214 Bacterial transcriptional regulator; Region: IclR; pfam01614 554290003215 YobH-like protein; Region: YobH; pfam13996 554290003216 PhoPQ regulatory protein; Provisional; Region: PRK10299 554290003217 YebO-like protein; Region: YebO; pfam13974 554290003218 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 554290003219 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 554290003220 DNA-binding site [nucleotide binding]; DNA binding site 554290003221 RNA-binding motif; other site 554290003222 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 554290003223 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 554290003224 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 554290003225 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 554290003226 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 554290003227 S-adenosylmethionine binding site [chemical binding]; other site 554290003228 hypothetical protein; Provisional; Region: PRK11469 554290003229 Domain of unknown function DUF; Region: DUF204; pfam02659 554290003230 Domain of unknown function DUF; Region: DUF204; pfam02659 554290003231 hypothetical protein; Provisional; Region: PRK02913 554290003232 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 554290003233 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 554290003234 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 554290003235 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 554290003236 active pocket/dimerization site; other site 554290003237 active site 554290003238 phosphorylation site [posttranslational modification] 554290003239 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 554290003240 active site 554290003241 phosphorylation site [posttranslational modification] 554290003242 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 554290003243 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 554290003244 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 554290003245 Transporter associated domain; Region: CorC_HlyC; smart01091 554290003246 phage resistance protein; Provisional; Region: PRK10551 554290003247 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 554290003248 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 554290003249 L-serine deaminase; Provisional; Region: PRK15023 554290003250 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 554290003251 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 554290003252 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 554290003253 putative active site [active] 554290003254 putative CoA binding site [chemical binding]; other site 554290003255 nudix motif; other site 554290003256 metal binding site [ion binding]; metal-binding site 554290003257 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 554290003258 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 554290003259 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 554290003260 hypothetical protein; Provisional; Region: PRK05114 554290003261 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 554290003262 homotrimer interaction site [polypeptide binding]; other site 554290003263 putative active site [active] 554290003264 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 554290003265 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 554290003266 DEAD_2; Region: DEAD_2; pfam06733 554290003267 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 554290003268 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 554290003269 Glycoprotease family; Region: Peptidase_M22; pfam00814 554290003270 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 554290003271 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 554290003272 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 554290003273 acyl-activating enzyme (AAE) consensus motif; other site 554290003274 putative AMP binding site [chemical binding]; other site 554290003275 putative active site [active] 554290003276 putative CoA binding site [chemical binding]; other site 554290003277 ribonuclease D; Provisional; Region: PRK10829 554290003278 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 554290003279 catalytic site [active] 554290003280 putative active site [active] 554290003281 putative substrate binding site [chemical binding]; other site 554290003282 HRDC domain; Region: HRDC; cl02578 554290003283 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 554290003284 cell division inhibitor MinD; Provisional; Region: PRK10818 554290003285 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 554290003286 Switch I; other site 554290003287 Switch II; other site 554290003288 septum formation inhibitor; Reviewed; Region: minC; PRK03511 554290003289 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 554290003290 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 554290003291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 554290003292 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 554290003293 hypothetical protein; Provisional; Region: PRK10691 554290003294 hypothetical protein; Provisional; Region: PRK05170 554290003295 GnsA/GnsB family; Region: GnsAB; pfam08178 554290003296 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 554290003297 disulfide bond formation protein B; Provisional; Region: PRK01749 554290003298 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 554290003299 transmembrane helices; other site 554290003300 fatty acid metabolism regulator; Provisional; Region: PRK04984 554290003301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290003302 DNA-binding site [nucleotide binding]; DNA binding site 554290003303 FadR C-terminal domain; Region: FadR_C; pfam07840 554290003304 SpoVR family protein; Provisional; Region: PRK11767 554290003305 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 554290003306 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 554290003307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 554290003308 alanine racemase; Reviewed; Region: dadX; PRK03646 554290003309 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 554290003310 active site 554290003311 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290003312 substrate binding site [chemical binding]; other site 554290003313 catalytic residues [active] 554290003314 dimer interface [polypeptide binding]; other site 554290003315 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 554290003316 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 554290003317 TrkA-C domain; Region: TrkA_C; pfam02080 554290003318 Transporter associated domain; Region: CorC_HlyC; smart01091 554290003319 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 554290003320 dimer interface [polypeptide binding]; other site 554290003321 catalytic triad [active] 554290003322 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 554290003323 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 554290003324 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290003325 catalytic residue [active] 554290003327 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 554290003328 trehalase; Provisional; Region: treA; PRK13271 554290003329 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 554290003330 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 554290003331 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 554290003332 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 554290003333 NAD(P) binding site [chemical binding]; other site 554290003334 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 554290003335 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 554290003336 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 554290003337 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 554290003338 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 554290003339 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 554290003340 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 554290003341 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 554290003342 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 554290003343 putative substrate-binding site; other site 554290003344 nickel binding site [ion binding]; other site 554290003345 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 554290003346 hydrogenase 1 large subunit; Provisional; Region: PRK10170 554290003347 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 554290003349 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 554290003350 Protein of unknown function (DUF4427); Region: DUF4427; pfam14468 554290003351 GTP-binding protein YchF; Reviewed; Region: PRK09601 554290003352 YchF GTPase; Region: YchF; cd01900 554290003353 G1 box; other site 554290003354 GTP/Mg2+ binding site [chemical binding]; other site 554290003355 Switch I region; other site 554290003356 G2 box; other site 554290003357 Switch II region; other site 554290003358 G3 box; other site 554290003359 G4 box; other site 554290003360 G5 box; other site 554290003361 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 554290003362 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 554290003363 putative active site [active] 554290003364 catalytic residue [active] 554290003365 hypothetical protein; Provisional; Region: PRK10692 554290003366 putative transporter; Provisional; Region: PRK11660 554290003367 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 554290003368 Sulfate transporter family; Region: Sulfate_transp; pfam00916 554290003369 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 554290003370 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 554290003371 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 554290003372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290003373 active site 554290003374 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 554290003375 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 554290003376 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 554290003377 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 554290003378 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 554290003379 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 554290003380 tRNA; other site 554290003381 putative tRNA binding site [nucleotide binding]; other site 554290003382 putative NADP binding site [chemical binding]; other site 554290003383 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 554290003384 peptide chain release factor 1; Validated; Region: prfA; PRK00591 554290003385 This domain is found in peptide chain release factors; Region: PCRF; smart00937 554290003386 RF-1 domain; Region: RF-1; pfam00472 554290003387 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 554290003388 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 554290003389 hypothetical protein; Provisional; Region: PRK10278 554290003390 hypothetical protein; Provisional; Region: PRK10941 554290003391 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 554290003392 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 554290003393 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 554290003394 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 554290003395 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 554290003397 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 554290003398 putative invasin; Provisional; Region: PRK10177 554290003399 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 554290003400 transcriptional regulator NarL; Provisional; Region: PRK10651 554290003401 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 554290003402 active site 554290003403 phosphorylation site [posttranslational modification] 554290003404 intermolecular recognition site; other site 554290003405 dimerization interface [polypeptide binding]; other site 554290003406 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 554290003407 DNA binding residues [nucleotide binding] 554290003408 dimerization interface [polypeptide binding]; other site 554290003409 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 554290003410 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 554290003411 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 554290003412 dimerization interface [polypeptide binding]; other site 554290003413 Histidine kinase; Region: HisKA_3; pfam07730 554290003414 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 554290003415 ATP binding site [chemical binding]; other site 554290003416 Mg2+ binding site [ion binding]; other site 554290003417 G-X-G motif; other site 554290003418 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 554290003419 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 554290003420 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 554290003421 [4Fe-4S] binding site [ion binding]; other site 554290003422 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 554290003423 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 554290003424 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 554290003425 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 554290003426 molybdopterin cofactor binding site; other site 554290003427 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 554290003428 4Fe-4S binding domain; Region: Fer4; cl02805 554290003429 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 554290003430 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 554290003431 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 554290003432 Sel1-like repeats; Region: SEL1; smart00671 554290003433 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 554290003434 Sel1-like repeats; Region: SEL1; smart00671 554290003435 Sel1-like repeats; Region: SEL1; smart00671 554290003436 Sel1-like repeats; Region: SEL1; smart00671 554290003437 Sel1-like repeats; Region: SEL1; smart00671 554290003438 Sel1-like repeats; Region: SEL1; smart00671 554290003439 Sel1-like repeats; Region: SEL1; smart00671 554290003440 Sel1-like repeats; Region: SEL1; smart00671 554290003441 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 554290003442 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 554290003443 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 554290003444 putative active site [active] 554290003445 putative substrate binding site [chemical binding]; other site 554290003446 putative cosubstrate binding site; other site 554290003447 catalytic site [active] 554290003448 SEC-C motif; Region: SEC-C; pfam02810 554290003449 hypothetical protein; Provisional; Region: PRK04233 554290003450 hypothetical protein; Provisional; Region: PRK10279 554290003451 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 554290003452 active site 554290003453 nucleophile elbow; other site 554290003454 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 554290003455 active site 554290003456 response regulator of RpoS; Provisional; Region: PRK10693 554290003457 phosphorylation site [posttranslational modification] 554290003458 intermolecular recognition site; other site 554290003459 dimerization interface [polypeptide binding]; other site 554290003460 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 554290003461 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 554290003462 active site 554290003463 tetramer interface; other site 554290003464 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 554290003465 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 554290003466 thymidine kinase; Provisional; Region: PRK04296 554290003467 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 554290003468 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 554290003469 putative catalytic cysteine [active] 554290003470 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 554290003471 putative active site [active] 554290003472 metal binding site [ion binding]; metal-binding site 554290003473 hypothetical protein; Provisional; Region: PRK11111 554290003474 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 554290003475 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 554290003476 peptide binding site [polypeptide binding]; other site 554290003477 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 554290003478 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 554290003479 dimer interface [polypeptide binding]; other site 554290003480 conserved gate region; other site 554290003481 putative PBP binding loops; other site 554290003482 ABC-ATPase subunit interface; other site 554290003483 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 554290003484 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 554290003485 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 554290003486 dimer interface [polypeptide binding]; other site 554290003487 conserved gate region; other site 554290003488 ABC-ATPase subunit interface; other site 554290003489 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 554290003490 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290003491 Walker A/P-loop; other site 554290003492 ATP binding site [chemical binding]; other site 554290003493 Q-loop/lid; other site 554290003494 ABC transporter signature motif; other site 554290003495 Walker B; other site 554290003496 D-loop; other site 554290003497 H-loop/switch region; other site 554290003498 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 554290003499 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 554290003500 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290003501 Walker A/P-loop; other site 554290003502 ATP binding site [chemical binding]; other site 554290003503 Q-loop/lid; other site 554290003504 ABC transporter signature motif; other site 554290003505 Walker B; other site 554290003506 D-loop; other site 554290003507 H-loop/switch region; other site 554290003508 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 554290003509 Ion transport protein; Region: Ion_trans; pfam00520 554290003510 Ion channel; Region: Ion_trans_2; pfam07885 554290003511 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 554290003512 Double zinc ribbon; Region: DZR; pfam12773 554290003513 dsDNA-mimic protein; Reviewed; Region: PRK05094 554290003514 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 554290003515 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 554290003516 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 554290003517 putative active site [active] 554290003518 catalytic site [active] 554290003519 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 554290003520 putative active site [active] 554290003521 catalytic site [active] 554290003522 YciI-like protein; Reviewed; Region: PRK11370 554290003523 transport protein TonB; Provisional; Region: PRK10819 554290003524 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 554290003525 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 554290003526 intracellular septation protein A; Reviewed; Region: PRK00259 554290003527 hypothetical protein; Provisional; Region: PRK02868 554290003528 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 554290003529 outer membrane protein W; Provisional; Region: PRK10959 554290003530 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 554290003531 dimanganese center [ion binding]; other site 554290003532 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 554290003533 dinuclear metal binding motif [ion binding]; other site 554290003534 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 554290003535 dimerization interface [polypeptide binding]; other site 554290003536 metal binding site [ion binding]; metal-binding site 554290003537 General stress protein [General function prediction only]; Region: GsiB; COG3729 554290003538 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 554290003539 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 554290003540 substrate binding site [chemical binding]; other site 554290003541 active site 554290003542 catalytic residues [active] 554290003543 heterodimer interface [polypeptide binding]; other site 554290003544 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 554290003545 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 554290003546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290003547 catalytic residue [active] 554290003548 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 554290003549 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 554290003550 active site 554290003551 ribulose/triose binding site [chemical binding]; other site 554290003552 phosphate binding site [ion binding]; other site 554290003553 substrate (anthranilate) binding pocket [chemical binding]; other site 554290003554 product (indole) binding pocket [chemical binding]; other site 554290003555 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 554290003556 active site 554290003557 similar to Salmonella typhi CT18 anthranilate synthase component II; anthranilate phosphoribosyltransferase; Pseudogene due to SNP @nt565 introducing a STOP codon after aa188. Not pseudogene in Paratyphi A strain ATCC9150 (SPA1153). 554290003558 anthranilate synthase component I; Provisional; Region: PRK13564 554290003559 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 554290003560 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 554290003561 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 554290003562 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 554290003563 active site 554290003564 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 554290003565 hypothetical protein; Provisional; Region: PRK11630 554290003566 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 554290003567 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 554290003568 RNA binding surface [nucleotide binding]; other site 554290003569 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 554290003570 probable active site [active] 554290003571 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 554290003572 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 554290003573 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 554290003574 homodimer interface [polypeptide binding]; other site 554290003575 Walker A motif; other site 554290003576 ATP binding site [chemical binding]; other site 554290003577 hydroxycobalamin binding site [chemical binding]; other site 554290003578 Walker B motif; other site 554290003579 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 554290003580 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 554290003581 NADP binding site [chemical binding]; other site 554290003582 homodimer interface [polypeptide binding]; other site 554290003583 active site 554290003584 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 554290003585 putative inner membrane peptidase; Provisional; Region: PRK11778 554290003586 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 554290003587 tandem repeat interface [polypeptide binding]; other site 554290003588 oligomer interface [polypeptide binding]; other site 554290003589 active site residues [active] 554290003590 hypothetical protein; Provisional; Region: PRK11037 554290003591 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 554290003592 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 554290003593 active site 554290003594 interdomain interaction site; other site 554290003595 putative metal-binding site [ion binding]; other site 554290003596 nucleotide binding site [chemical binding]; other site 554290003597 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 554290003598 domain I; other site 554290003599 DNA binding groove [nucleotide binding] 554290003600 phosphate binding site [ion binding]; other site 554290003601 domain II; other site 554290003602 domain III; other site 554290003603 nucleotide binding site [chemical binding]; other site 554290003604 catalytic site [active] 554290003605 domain IV; other site 554290003606 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 554290003607 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 554290003608 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 554290003609 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 554290003610 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 554290003611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290003612 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 554290003613 substrate binding site [chemical binding]; other site 554290003614 putative dimerization interface [polypeptide binding]; other site 554290003615 aconitate hydratase; Validated; Region: PRK09277 554290003616 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 554290003617 substrate binding site [chemical binding]; other site 554290003618 ligand binding site [chemical binding]; other site 554290003619 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 554290003620 substrate binding site [chemical binding]; other site 554290003621 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 554290003622 dimerization interface [polypeptide binding]; other site 554290003623 active site 554290003624 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 554290003625 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 554290003626 active site 554290003627 Predicted membrane protein [Function unknown]; Region: COG3771 554290003628 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 554290003629 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 554290003630 TPR motif; other site 554290003631 binding surface 554290003632 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 554290003633 binding surface 554290003634 TPR motif; other site 554290003635 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 554290003636 active site 554290003637 dimer interface [polypeptide binding]; other site 554290003638 translation initiation factor Sui1; Validated; Region: PRK06824 554290003639 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 554290003640 putative rRNA binding site [nucleotide binding]; other site 554290003641 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290003642 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290003643 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290003644 hypothetical protein; Provisional; Region: PRK13658 554290003645 RNase II stability modulator; Provisional; Region: PRK10060 554290003646 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 554290003647 putative active site [active] 554290003648 heme pocket [chemical binding]; other site 554290003649 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290003650 metal binding site [ion binding]; metal-binding site 554290003651 active site 554290003652 I-site; other site 554290003653 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 554290003654 exoribonuclease II; Provisional; Region: PRK05054 554290003655 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 554290003656 RNB domain; Region: RNB; pfam00773 554290003657 S1 RNA binding domain; Region: S1; pfam00575 554290003658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 554290003659 Uncharacterized conserved protein [Function unknown]; Region: COG2128 554290003660 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 554290003661 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 554290003662 NAD binding site [chemical binding]; other site 554290003663 homotetramer interface [polypeptide binding]; other site 554290003664 homodimer interface [polypeptide binding]; other site 554290003665 substrate binding site [chemical binding]; other site 554290003666 active site 554290003668 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 554290003669 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 554290003670 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290003671 Walker A/P-loop; other site 554290003672 ATP binding site [chemical binding]; other site 554290003673 Q-loop/lid; other site 554290003674 ABC transporter signature motif; other site 554290003675 Walker B; other site 554290003676 D-loop; other site 554290003677 H-loop/switch region; other site 554290003678 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 554290003679 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290003680 Walker A/P-loop; other site 554290003681 ATP binding site [chemical binding]; other site 554290003682 Q-loop/lid; other site 554290003683 ABC transporter signature motif; other site 554290003684 Walker B; other site 554290003685 D-loop; other site 554290003686 H-loop/switch region; other site 554290003687 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 554290003688 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 554290003689 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 554290003690 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 554290003691 dimer interface [polypeptide binding]; other site 554290003692 conserved gate region; other site 554290003693 putative PBP binding loops; other site 554290003694 ABC-ATPase subunit interface; other site 554290003695 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 554290003697 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 554290003699 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15267 554290003700 'Similarity: STY1365, bacteriophage gene remnant' 554290003702 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 554290003703 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 554290003704 dimer interface [polypeptide binding]; other site 554290003705 conserved gate region; other site 554290003706 putative PBP binding loops; other site 554290003707 ABC-ATPase subunit interface; other site 554290003708 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 554290003709 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 554290003710 peptide binding site [polypeptide binding]; other site 554290003711 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 554290003712 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 554290003713 Walker A motif; other site 554290003714 ATP binding site [chemical binding]; other site 554290003715 Walker B motif; other site 554290003716 arginine finger; other site 554290003717 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 554290003718 phage shock protein PspA; Provisional; Region: PRK10698 554290003719 phage shock protein B; Provisional; Region: pspB; PRK09458 554290003720 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 554290003721 phage shock protein C; Region: phageshock_pspC; TIGR02978 554290003722 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 554290003723 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 554290003724 active site residue [active] 554290003725 Predicted ATPase [General function prediction only]; Region: COG3106 554290003726 hypothetical protein; Provisional; Region: PRK05415 554290003727 TIGR01620 family protein; Region: hyp_HI0043 554290003728 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 554290003729 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 554290003730 putative aromatic amino acid binding site; other site 554290003731 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 554290003732 Walker A motif; other site 554290003733 ATP binding site [chemical binding]; other site 554290003734 Walker B motif; other site 554290003735 arginine finger; other site 554290003736 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 554290003737 dimer interface [polypeptide binding]; other site 554290003738 catalytic triad [active] 554290003739 peroxidatic and resolving cysteines [active] 554290003740 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 554290003741 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 554290003742 active site 554290003743 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 554290003744 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 554290003745 putative active site [active] 554290003746 Zn binding site [ion binding]; other site 554290003747 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 554290003748 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 554290003749 peptide binding site [polypeptide binding]; other site 554290003751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290003752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290003753 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 554290003754 putative effector binding pocket; other site 554290003755 putative dimerization interface [polypeptide binding]; other site 554290003756 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 554290003757 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290003758 active site 554290003759 catalytic tetrad [active] 554290003760 oxidoreductase; Provisional; Region: PRK12742 554290003761 classical (c) SDRs; Region: SDR_c; cd05233 554290003762 NAD(P) binding site [chemical binding]; other site 554290003763 active site 554290003764 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 554290003765 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290003766 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 554290003768 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 554290003769 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290003770 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 554290003772 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: Tpx; COG2077 554290003773 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 554290003774 B3/4 domain; Region: B3_4; pfam03483 554290003775 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 554290003776 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 554290003777 non-specific DNA binding site [nucleotide binding]; other site 554290003778 salt bridge; other site 554290003779 sequence-specific DNA binding site [nucleotide binding]; other site 554290003780 Cupin domain; Region: Cupin_2; pfam07883 554290003781 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 554290003782 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290003783 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 554290003784 universal stress protein UspE; Provisional; Region: PRK11175 554290003785 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 554290003786 Ligand Binding Site [chemical binding]; other site 554290003787 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 554290003788 Ligand Binding Site [chemical binding]; other site 554290003789 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 554290003790 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 554290003791 ligand binding site [chemical binding]; other site 554290003792 flexible hinge region; other site 554290003793 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 554290003794 putative switch regulator; other site 554290003795 non-specific DNA interactions [nucleotide binding]; other site 554290003796 DNA binding site [nucleotide binding] 554290003797 sequence specific DNA binding site [nucleotide binding]; other site 554290003798 putative cAMP binding site [chemical binding]; other site 554290003799 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 554290003800 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 554290003801 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 554290003802 DNA binding site [nucleotide binding] 554290003803 active site 554290003804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 554290003805 Smr domain; Region: Smr; pfam01713 554290003807 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 554290003808 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 554290003809 Cl binding site [ion binding]; other site 554290003810 oligomer interface [polypeptide binding]; other site 554290003811 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 554290003812 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 554290003813 ATP binding site [chemical binding]; other site 554290003814 Mg++ binding site [ion binding]; other site 554290003815 motif III; other site 554290003816 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 554290003817 nucleotide binding region [chemical binding]; other site 554290003818 ATP-binding site [chemical binding]; other site 554290003819 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 554290003820 putative RNA binding site [nucleotide binding]; other site 554290003821 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 554290003822 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 554290003823 Ligand Binding Site [chemical binding]; other site 554290003824 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 554290003825 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 554290003826 Ligand Binding Site [chemical binding]; other site 554290003827 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 554290003828 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 554290003829 dimer interface [polypeptide binding]; other site 554290003830 PYR/PP interface [polypeptide binding]; other site 554290003831 TPP binding site [chemical binding]; other site 554290003832 substrate binding site [chemical binding]; other site 554290003833 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 554290003834 Domain of unknown function; Region: EKR; smart00890 554290003835 4Fe-4S binding domain; Region: Fer4_6; pfam12837 554290003836 4Fe-4S binding domain; Region: Fer4; pfam00037 554290003837 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 554290003838 TPP-binding site [chemical binding]; other site 554290003839 dimer interface [polypeptide binding]; other site 554290003840 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 554290003841 Domain of unknown function (DUF333); Region: DUF333; pfam03891 554290003842 heat-inducible protein; Provisional; Region: PRK10449 554290003843 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 554290003844 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 554290003845 putative ligand binding site [chemical binding]; other site 554290003846 putative NAD binding site [chemical binding]; other site 554290003847 catalytic site [active] 554290003848 hypothetical protein; Provisional; Region: PRK10695 554290003849 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 554290003850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 554290003851 Uncharacterized conserved protein [Function unknown]; Region: COG3791 554290003852 azoreductase; Reviewed; Region: PRK00170 554290003853 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 554290003854 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 554290003855 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 554290003856 ATP binding site [chemical binding]; other site 554290003857 putative Mg++ binding site [ion binding]; other site 554290003858 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 554290003859 nucleotide binding region [chemical binding]; other site 554290003860 ATP-binding site [chemical binding]; other site 554290003861 Helicase associated domain (HA2); Region: HA2; pfam04408 554290003862 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 554290003863 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 554290003864 Uncharacterized conserved protein [Function unknown]; Region: COG1434 554290003865 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 554290003866 putative active site [active] 554290003867 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 554290003868 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 554290003869 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 554290003870 Uncharacterized conserved protein [Function unknown]; Region: COG2353 554290003871 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 554290003872 teramer interface [polypeptide binding]; other site 554290003873 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 554290003874 active site 554290003875 FMN binding site [chemical binding]; other site 554290003876 catalytic residues [active] 554290003877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290003878 Coenzyme A binding pocket [chemical binding]; other site 554290003879 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290003880 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290003881 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290003882 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 554290003883 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 554290003884 substrate binding site [chemical binding]; other site 554290003885 hexamer interface [polypeptide binding]; other site 554290003886 metal binding site [ion binding]; metal-binding site 554290003887 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 554290003888 active site 554290003889 phosphorylation site [posttranslational modification] 554290003890 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 554290003891 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 554290003892 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 554290003893 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 554290003894 active site 554290003895 P-loop; other site 554290003896 phosphorylation site [posttranslational modification] 554290003897 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 554290003898 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 554290003899 oligomer interface [polypeptide binding]; other site 554290003900 active site 554290003901 metal binding site [ion binding]; metal-binding site 554290003902 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 554290003903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290003904 Coenzyme A binding pocket [chemical binding]; other site 554290003905 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 554290003906 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 554290003907 putative trimer interface [polypeptide binding]; other site 554290003908 putative CoA binding site [chemical binding]; other site 554290003909 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 554290003910 putative trimer interface [polypeptide binding]; other site 554290003911 putative CoA binding site [chemical binding]; other site 554290003912 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 554290003913 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 554290003914 gating phenylalanine in ion channel; other site 554290003915 tellurite resistance protein TehB; Provisional; Region: PRK11207 554290003916 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 554290003917 S-adenosylmethionine binding site [chemical binding]; other site 554290003918 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 554290003920 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 554290003921 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 554290003922 Peptidase family U32; Region: Peptidase_U32; pfam01136 554290003923 Collagenase; Region: DUF3656; pfam12392 554290003924 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 554290003926 similar to hypothetical protein 554290003927 D-alanyl-D-alanine dipeptidase [Cell envelope biogenesis, outer membrane]; Region: DdpX; COG2173 554290003928 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 554290003929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290003930 DNA-binding site [nucleotide binding]; DNA binding site 554290003931 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 554290003932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290003933 homodimer interface [polypeptide binding]; other site 554290003934 catalytic residue [active] 554290003935 1-pyrroline dehydrogenase; Region: ABALDH; TIGR03374 554290003936 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 554290003937 tetrameric interface [polypeptide binding]; other site 554290003938 NAD binding site [chemical binding]; other site 554290003939 catalytic residues [active] 554290003940 substrate binding site [chemical binding]; other site 554290003941 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 554290003942 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 554290003943 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfB; COG4457 554290003944 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 554290003945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 554290003946 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 554290003947 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 554290003948 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 554290003949 Prostaglandin dehydrogenases; Region: PGDH; cd05288 554290003950 NAD(P) binding site [chemical binding]; other site 554290003951 substrate binding site [chemical binding]; other site 554290003952 dimer interface [polypeptide binding]; other site 554290003953 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 554290003954 DNA-binding site [nucleotide binding]; DNA binding site 554290003955 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 554290003956 FCD domain; Region: FCD; pfam07729 554290003957 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 554290003958 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 554290003959 N-terminal plug; other site 554290003960 ligand-binding site [chemical binding]; other site 554290003961 Uncharacterized conserved protein [Function unknown]; Region: COG3391 554290003962 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 554290003963 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 554290003964 L-asparagine permease; Provisional; Region: PRK15049 554290003965 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 554290003966 hypothetical protein; Provisional; Region: PRK10281 554290003967 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 554290003969 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 554290003970 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 554290003971 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 554290003972 [4Fe-4S] binding site [ion binding]; other site 554290003973 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 554290003974 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 554290003975 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 554290003976 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 554290003977 molybdopterin cofactor binding site; other site 554290003978 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 554290003979 TetR family transcriptional regulator; Provisional; Region: PRK14996 554290003980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290003981 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 554290003982 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 554290003983 putative substrate translocation pore; other site 554290003984 Uncharacterized conserved protein [Function unknown]; Region: COG3791 554290003985 Pseudogene due to IS10 insertion. Not pseudogene in Paratyphi A strain ATCC9150 (SPA1296) 554290003986 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 554290003987 aromatic amino acid exporter; Provisional; Region: PRK11689 554290003988 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 554290003989 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 554290003990 [4Fe-4S] binding site [ion binding]; other site 554290003991 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 554290003992 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 554290003993 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 554290003994 molybdopterin cofactor binding site; other site 554290003995 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 554290003996 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 554290003997 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 554290003998 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 554290003999 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 554290004000 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 554290004001 NAD binding site [chemical binding]; other site 554290004002 substrate binding site [chemical binding]; other site 554290004003 catalytic Zn binding site [ion binding]; other site 554290004004 tetramer interface [polypeptide binding]; other site 554290004005 structural Zn binding site [ion binding]; other site 554290004006 malate dehydrogenase; Provisional; Region: PRK13529 554290004007 Malic enzyme, N-terminal domain; Region: malic; pfam00390 554290004008 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 554290004009 NAD(P) binding site [chemical binding]; other site 554290004010 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 554290004011 biofilm-dependent modulation protein; Provisional; Region: PRK11436 554290004012 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 554290004013 hemolysin E; Provisional; Region: hlyE; PRK11376 554290004015 acid-resistance protein; Provisional; Region: hdeB; PRK11566 554290004016 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 554290004017 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 554290004018 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 554290004019 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 554290004020 catalytic site [active] 554290004021 active site 554290004022 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 554290004023 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 554290004024 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 554290004025 active site 554290004026 catalytic site [active] 554290004027 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 554290004028 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 554290004029 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 554290004030 active site 554290004031 catalytic site [active] 554290004032 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 554290004033 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 554290004034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290004035 homodimer interface [polypeptide binding]; other site 554290004036 catalytic residue [active] 554290004038 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 554290004039 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 554290004040 Transcriptional regulators [Transcription]; Region: MarR; COG1846 554290004041 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 554290004042 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 554290004043 hydrogenase 1 large subunit; Provisional; Region: PRK10170 554290004044 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 554290004045 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 554290004046 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 554290004047 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 554290004048 putative substrate-binding site; other site 554290004049 nickel binding site [ion binding]; other site 554290004051 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 554290004052 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 554290004053 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 554290004054 Rubredoxin [Energy production and conversion]; Region: COG1773 554290004055 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 554290004056 iron binding site [ion binding]; other site 554290004057 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 554290004058 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 554290004059 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 554290004060 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290004061 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 554290004062 trimer interface [polypeptide binding]; other site 554290004063 eyelet of channel; other site 554290004064 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 554290004065 Predicted membrane protein [Function unknown]; Region: COG3781 554290004066 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 554290004067 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 554290004068 glutaminase; Provisional; Region: PRK00971 554290004069 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 554290004070 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 554290004071 NAD(P) binding site [chemical binding]; other site 554290004072 catalytic residues [active] 554290004073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290004074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290004075 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 554290004076 putative dimerization interface [polypeptide binding]; other site 554290004077 putative arabinose transporter; Provisional; Region: PRK03545 554290004078 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 554290004079 inner membrane protein; Provisional; Region: PRK10995 554290004080 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 554290004081 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 554290004082 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 554290004083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290004084 hypothetical protein; Provisional; Region: PRK10053 554290004085 hypothetical protein; Validated; Region: PRK03657 554290004086 General stress protein [General function prediction only]; Region: GsiB; COG3729 554290004087 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 554290004088 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 554290004089 active site 554290004090 Zn binding site [ion binding]; other site 554290004091 malonic semialdehyde reductase; Provisional; Region: PRK10538 554290004092 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 554290004093 putative NAD(P) binding site [chemical binding]; other site 554290004094 homodimer interface [polypeptide binding]; other site 554290004095 homotetramer interface [polypeptide binding]; other site 554290004096 active site 554290004097 Transcriptional regulators [Transcription]; Region: GntR; COG1802 554290004098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290004099 DNA-binding site [nucleotide binding]; DNA binding site 554290004100 FCD domain; Region: FCD; pfam07729 554290004101 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 554290004102 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 554290004103 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 554290004104 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 554290004105 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 554290004106 metabolite-proton symporter; Region: 2A0106; TIGR00883 554290004107 putative substrate translocation pore; other site 554290004108 putative oxidoreductase; Provisional; Region: PRK10083 554290004109 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 554290004110 putative NAD(P) binding site [chemical binding]; other site 554290004111 catalytic Zn binding site [ion binding]; other site 554290004112 structural Zn binding site [ion binding]; other site 554290004113 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 554290004114 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 554290004115 putative active site pocket [active] 554290004116 putative metal binding site [ion binding]; other site 554290004117 hypothetical protein; Provisional; Region: PRK02237 554290004118 hypothetical protein; Provisional; Region: PRK13659 554290004119 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 554290004120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290004121 Coenzyme A binding pocket [chemical binding]; other site 554290004122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 554290004123 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 554290004124 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 554290004125 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 554290004126 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 554290004127 putative [Fe4-S4] binding site [ion binding]; other site 554290004128 putative molybdopterin cofactor binding site [chemical binding]; other site 554290004129 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 554290004130 putative molybdopterin cofactor binding site; other site 554290004131 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 554290004132 4Fe-4S binding domain; Region: Fer4; pfam00037 554290004133 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 554290004134 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 554290004135 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 554290004136 dimer interface [polypeptide binding]; other site 554290004137 conserved gate region; other site 554290004138 putative PBP binding loops; other site 554290004139 ABC-ATPase subunit interface; other site 554290004140 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 554290004141 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 554290004142 dimer interface [polypeptide binding]; other site 554290004143 conserved gate region; other site 554290004144 ABC-ATPase subunit interface; other site 554290004145 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 554290004146 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 554290004147 Walker A/P-loop; other site 554290004148 ATP binding site [chemical binding]; other site 554290004149 Q-loop/lid; other site 554290004150 ABC transporter signature motif; other site 554290004151 Walker B; other site 554290004152 D-loop; other site 554290004153 H-loop/switch region; other site 554290004154 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 554290004156 putative dithiobiotin synthetase; Provisional; Region: PRK12374 554290004157 AAA domain; Region: AAA_26; pfam13500 554290004158 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 554290004159 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 554290004160 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290004161 nucleotide binding site [chemical binding]; other site 554290004162 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 554290004163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290004164 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 554290004165 dimerization interface [polypeptide binding]; other site 554290004166 substrate binding pocket [chemical binding]; other site 554290004167 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 554290004168 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 554290004169 putative substrate translocation pore; other site 554290004170 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 554290004172 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 554290004173 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 554290004174 Domain of unknown function DUF20; Region: UPF0118; pfam01594 554290004175 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 554290004176 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 554290004177 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 554290004178 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 554290004179 ligand binding site [chemical binding]; other site 554290004180 homodimer interface [polypeptide binding]; other site 554290004181 NAD(P) binding site [chemical binding]; other site 554290004182 trimer interface B [polypeptide binding]; other site 554290004183 trimer interface A [polypeptide binding]; other site 554290004184 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 554290004185 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290004186 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290004187 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290004188 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 554290004189 Spore germination protein; Region: Spore_permease; cl17796 554290004190 GlpM protein; Region: GlpM; pfam06942 554290004191 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 554290004192 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 554290004193 active site 554290004194 phosphorylation site [posttranslational modification] 554290004195 intermolecular recognition site; other site 554290004196 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 554290004197 DNA binding site [nucleotide binding] 554290004199 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290004200 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 554290004201 trimer interface [polypeptide binding]; other site 554290004202 eyelet of channel; other site 554290004203 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 554290004204 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 554290004205 active site 554290004206 sensor protein RstB; Provisional; Region: PRK10604 554290004207 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 554290004208 dimerization interface [polypeptide binding]; other site 554290004209 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 554290004210 dimer interface [polypeptide binding]; other site 554290004211 phosphorylation site [posttranslational modification] 554290004212 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 554290004213 ATP binding site [chemical binding]; other site 554290004214 Mg2+ binding site [ion binding]; other site 554290004215 G-X-G motif; other site 554290004216 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 554290004217 fumarate hydratase; Reviewed; Region: fumC; PRK00485 554290004218 Class II fumarases; Region: Fumarase_classII; cd01362 554290004219 active site 554290004220 tetramer interface [polypeptide binding]; other site 554290004221 fumarate hydratase; Provisional; Region: PRK15389 554290004222 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 554290004223 Fumarase C-terminus; Region: Fumerase_C; pfam05683 554290004224 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 554290004225 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 554290004226 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 554290004227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 554290004228 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 554290004229 similar to malX 554290004230 malY 554290004232 putative oxidoreductase; Provisional; Region: PRK11579 554290004233 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 554290004234 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 554290004235 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 554290004236 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 554290004237 electron transport complex protein RsxA; Provisional; Region: PRK05151 554290004238 electron transport complex protein RnfB; Provisional; Region: PRK05113 554290004239 Putative Fe-S cluster; Region: FeS; cl17515 554290004240 4Fe-4S binding domain; Region: Fer4; pfam00037 554290004241 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 554290004242 SLBB domain; Region: SLBB; pfam10531 554290004243 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 554290004244 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 554290004245 electron transport complex protein RnfG; Validated; Region: PRK01908 554290004246 electron transport complex RsxE subunit; Provisional; Region: PRK12405 554290004247 endonuclease III; Provisional; Region: PRK10702 554290004248 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 554290004249 minor groove reading motif; other site 554290004250 helix-hairpin-helix signature motif; other site 554290004251 substrate binding pocket [chemical binding]; other site 554290004252 active site 554290004253 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 554290004254 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 554290004255 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 554290004256 putative substrate translocation pore; other site 554290004257 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 554290004258 glutathionine S-transferase; Provisional; Region: PRK10542 554290004259 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 554290004260 C-terminal domain interface [polypeptide binding]; other site 554290004261 GSH binding site (G-site) [chemical binding]; other site 554290004262 dimer interface [polypeptide binding]; other site 554290004263 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 554290004264 dimer interface [polypeptide binding]; other site 554290004265 N-terminal domain interface [polypeptide binding]; other site 554290004266 substrate binding pocket (H-site) [chemical binding]; other site 554290004267 pyridoxamine kinase; Validated; Region: PRK05756 554290004268 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 554290004269 dimer interface [polypeptide binding]; other site 554290004270 pyridoxal binding site [chemical binding]; other site 554290004271 ATP binding site [chemical binding]; other site 554290004272 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 554290004273 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 554290004274 active site 554290004275 HIGH motif; other site 554290004276 dimer interface [polypeptide binding]; other site 554290004277 KMSKS motif; other site 554290004278 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 554290004279 RNA binding surface [nucleotide binding]; other site 554290004280 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 554290004281 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 554290004282 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 554290004283 lysozyme inhibitor; Provisional; Region: PRK11372 554290004284 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 554290004285 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 554290004286 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 554290004287 transcriptional regulator SlyA; Provisional; Region: PRK03573 554290004288 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 554290004289 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 554290004290 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 554290004291 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290004292 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290004293 Fusaric acid resistance protein family; Region: FUSC; pfam04632 554290004294 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 554290004295 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 554290004296 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 554290004297 E-class dimer interface [polypeptide binding]; other site 554290004298 P-class dimer interface [polypeptide binding]; other site 554290004299 active site 554290004300 Cu2+ binding site [ion binding]; other site 554290004301 Zn2+ binding site [ion binding]; other site 554290004302 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 554290004303 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290004304 active site 554290004305 catalytic tetrad [active] 554290004306 Predicted Fe-S protein [General function prediction only]; Region: COG3313 554290004307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 554290004308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290004309 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 554290004310 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 554290004311 FMN binding site [chemical binding]; other site 554290004312 active site 554290004313 substrate binding site [chemical binding]; other site 554290004314 catalytic residue [active] 554290004315 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 554290004316 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 554290004317 dimer interface [polypeptide binding]; other site 554290004318 active site 554290004319 metal binding site [ion binding]; metal-binding site 554290004320 glutathione binding site [chemical binding]; other site 554290004321 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 554290004322 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 554290004323 dimer interface [polypeptide binding]; other site 554290004324 catalytic site [active] 554290004325 putative active site [active] 554290004326 putative substrate binding site [chemical binding]; other site 554290004327 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 554290004328 putative GSH binding site [chemical binding]; other site 554290004329 catalytic residues [active] 554290004330 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 554290004331 NlpC/P60 family; Region: NLPC_P60; pfam00877 554290004332 superoxide dismutase; Provisional; Region: PRK10543 554290004333 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 554290004334 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 554290004335 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 554290004336 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290004337 DNA binding site [nucleotide binding] 554290004338 domain linker motif; other site 554290004339 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 554290004340 dimerization interface [polypeptide binding]; other site 554290004341 ligand binding site [chemical binding]; other site 554290004342 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 554290004343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290004344 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 554290004345 dimerization interface [polypeptide binding]; other site 554290004346 putative transporter; Provisional; Region: PRK11043 554290004347 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 554290004348 putative substrate translocation pore; other site 554290004349 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 554290004350 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 554290004351 S-adenosylmethionine binding site [chemical binding]; other site 554290004352 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 554290004353 Lumazine binding domain; Region: Lum_binding; pfam00677 554290004354 Lumazine binding domain; Region: Lum_binding; pfam00677 554290004355 multidrug efflux protein; Reviewed; Region: PRK01766 554290004356 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 554290004357 cation binding site [ion binding]; other site 554290004358 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 554290004359 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 554290004360 type III secretion system protein SsaT; Provisional; Region: PRK15349 554290004361 type III secretion system protein SsaS; Provisional; Region: PRK15350 554290004362 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 554290004363 type III secretion system protein SsaQ; Validated; Region: PRK08035 554290004364 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 554290004365 type III secretion system protein SsaP; Provisional; Region: PRK15351 554290004366 type III secretion system protein SsaO; Provisional; Region: PRK15352 554290004367 type III secretion system ATPase SsaN; Validated; Region: PRK07594 554290004368 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 554290004369 Walker A motif; other site 554290004370 ATP binding site [chemical binding]; other site 554290004371 Walker B motif; other site 554290004372 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 554290004373 FHIPEP family; Region: FHIPEP; pfam00771 554290004374 type III secretion system protein SsaM; Provisional; Region: PRK15353 554290004375 type III secretion system protein SsaL; Provisional; Region: PRK15345 554290004376 HrpJ-like domain; Region: HrpJ; pfam07201 554290004377 TyeA; Region: TyeA; cl07611 554290004378 type III secretion system protein SsaK; Provisional; Region: PRK15354 554290004379 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 554290004380 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 554290004381 type III secretion system lipoprotein SsaJ; Provisional; Region: PRK15348 554290004382 type III secretion system protein SsaI; Provisional; Region: PRK15355 554290004383 type III secretion system protein SsaH; Provisional; Region: PRK15356 554290004384 type III secretion system needle protein SsaG; Provisional; Region: PRK15344 554290004385 pathogenicity island 2 effector protein SseG; Provisional; Region: PRK15357 554290004386 pathogenicity island 2 effector protein SseF; Provisional; Region: PRK15358 554290004387 type III secretion system chaperone protein SscB; Provisional; Region: PRK15359 554290004388 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 554290004389 TPR motif; other site 554290004390 binding surface 554290004391 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 554290004392 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 554290004393 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 554290004394 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 554290004395 pathogenicity island 2 effector protein SseB; Provisional; Region: PRK15364 554290004396 type III secretion system chaperone SseA; Provisional; Region: PRK15365 554290004397 type III secretion system chaperone SsaE; Provisional; Region: PRK15366 554290004398 type III secretion system protein SsaD; Provisional; Region: PRK15367 554290004399 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 554290004400 outer membrane secretin SsaC; Provisional; Region: PRK15346 554290004401 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 554290004402 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 554290004403 pathogenicity island chaperone protein SpiC; Provisional; Region: PRK15368 554290004404 two component system sensor kinase SsrA; Provisional; Region: PRK15347 554290004405 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 554290004406 dimerization interface [polypeptide binding]; other site 554290004407 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 554290004408 dimer interface [polypeptide binding]; other site 554290004409 phosphorylation site [posttranslational modification] 554290004410 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 554290004411 ATP binding site [chemical binding]; other site 554290004412 Mg2+ binding site [ion binding]; other site 554290004413 G-X-G motif; other site 554290004414 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 554290004415 active site 554290004416 phosphorylation site [posttranslational modification] 554290004417 intermolecular recognition site; other site 554290004418 dimerization interface [polypeptide binding]; other site 554290004419 two component system sensor kinase SsrB; Provisional; Region: PRK15369 554290004420 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 554290004421 active site 554290004422 phosphorylation site [posttranslational modification] 554290004423 intermolecular recognition site; other site 554290004424 dimerization interface [polypeptide binding]; other site 554290004425 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 554290004426 DNA binding residues [nucleotide binding] 554290004427 dimerization interface [polypeptide binding]; other site 554290004428 transcriptional regulator MirA; Provisional; Region: PRK15043 554290004429 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 554290004430 DNA binding residues [nucleotide binding] 554290004431 Uncharacterized conserved protein [Function unknown]; Region: COG1683 554290004432 Uncharacterized conserved protein [Function unknown]; Region: COG3272 554290004433 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 554290004434 hypothetical protein; Provisional; Region: PRK10292 554290004435 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 554290004436 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 554290004437 active site 554290004438 phosphorylation site [posttranslational modification] 554290004439 intermolecular recognition site; other site 554290004440 dimerization interface [polypeptide binding]; other site 554290004441 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 554290004442 DNA binding residues [nucleotide binding] 554290004443 dimerization interface [polypeptide binding]; other site 554290004444 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 554290004445 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 554290004446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 554290004447 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 554290004448 dimer interface [polypeptide binding]; other site 554290004449 phosphorylation site [posttranslational modification] 554290004450 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 554290004451 ATP binding site [chemical binding]; other site 554290004452 Mg2+ binding site [ion binding]; other site 554290004453 G-X-G motif; other site 554290004455 tetrathionate reductase subunit C; Provisional; Region: PRK14992 554290004456 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 554290004457 tetrathionate reductase subunit A; Provisional; Region: PRK14991 554290004458 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 554290004459 putative [Fe4-S4] binding site [ion binding]; other site 554290004460 putative molybdopterin cofactor binding site [chemical binding]; other site 554290004461 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 554290004462 putative molybdopterin cofactor binding site; other site 554290004464 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 554290004465 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 554290004466 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 554290004467 pyruvate kinase; Provisional; Region: PRK09206 554290004468 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 554290004469 active site 554290004470 domain interfaces; other site 554290004471 murein lipoprotein; Provisional; Region: PRK15396 554290004472 murein lipoprotein; Provisional; Region: PRK15396 554290004473 murein lipoprotein; Provisional; Region: PRK15396 554290004474 L,D-transpeptidase; Provisional; Region: PRK10190 554290004475 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290004476 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290004477 cysteine desufuration protein SufE; Provisional; Region: PRK09296 554290004480 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 554290004481 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 554290004482 Walker A/P-loop; other site 554290004483 ATP binding site [chemical binding]; other site 554290004484 Q-loop/lid; other site 554290004485 ABC transporter signature motif; other site 554290004486 Walker B; other site 554290004487 D-loop; other site 554290004488 H-loop/switch region; other site 554290004489 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 554290004490 putative ABC transporter; Region: ycf24; CHL00085 554290004491 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 554290004492 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 554290004493 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 554290004494 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 554290004495 CoenzymeA binding site [chemical binding]; other site 554290004496 subunit interaction site [polypeptide binding]; other site 554290004497 PHB binding site; other site 554290004498 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 554290004499 FAD binding domain; Region: FAD_binding_4; pfam01565 554290004500 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 554290004501 putative inner membrane protein; Provisional; Region: PRK10983 554290004502 Domain of unknown function DUF20; Region: UPF0118; pfam01594 554290004503 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 554290004504 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 554290004505 active site 554290004506 catalytic residue [active] 554290004507 dimer interface [polypeptide binding]; other site 554290004508 phosphoenolpyruvate synthase; Validated; Region: PRK06464 554290004509 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 554290004510 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 554290004511 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 554290004512 PEP synthetase regulatory protein; Provisional; Region: PRK05339 554290004513 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 554290004514 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 554290004515 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 554290004516 Uncharacterized conserved protein [Function unknown]; Region: COG0397 554290004517 hypothetical protein; Validated; Region: PRK00029 554290004518 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 554290004519 NlpC/P60 family; Region: NLPC_P60; pfam00877 554290004520 ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]; Region: BtuD; COG4138 554290004521 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 554290004522 Walker A/P-loop; other site 554290004523 ATP binding site [chemical binding]; other site 554290004524 Q-loop/lid; other site 554290004525 ABC transporter signature motif; other site 554290004526 Walker B; other site 554290004527 D-loop; other site 554290004528 H-loop/switch region; other site 554290004529 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 554290004530 catalytic residues [active] 554290004531 dimer interface [polypeptide binding]; other site 554290004532 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 554290004533 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 554290004534 ABC-ATPase subunit interface; other site 554290004535 dimer interface [polypeptide binding]; other site 554290004536 putative PBP binding regions; other site 554290004537 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 554290004538 IHF dimer interface [polypeptide binding]; other site 554290004539 IHF - DNA interface [nucleotide binding]; other site 554290004540 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 554290004541 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 554290004542 putative tRNA-binding site [nucleotide binding]; other site 554290004543 B3/4 domain; Region: B3_4; pfam03483 554290004544 tRNA synthetase B5 domain; Region: B5; smart00874 554290004545 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 554290004546 dimer interface [polypeptide binding]; other site 554290004547 motif 1; other site 554290004548 motif 3; other site 554290004549 motif 2; other site 554290004550 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 554290004551 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 554290004552 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 554290004553 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 554290004554 dimer interface [polypeptide binding]; other site 554290004555 motif 1; other site 554290004556 active site 554290004557 motif 2; other site 554290004558 motif 3; other site 554290004559 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 554290004560 23S rRNA binding site [nucleotide binding]; other site 554290004561 L21 binding site [polypeptide binding]; other site 554290004562 L13 binding site [polypeptide binding]; other site 554290004563 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 554290004564 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 554290004565 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 554290004566 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 554290004567 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 554290004568 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 554290004569 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 554290004570 active site 554290004571 dimer interface [polypeptide binding]; other site 554290004572 motif 1; other site 554290004573 motif 2; other site 554290004574 motif 3; other site 554290004575 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 554290004576 anticodon binding site; other site 554290004577 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 554290004578 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 554290004579 active site 554290004580 substrate binding site [chemical binding]; other site 554290004581 Mg2+ binding site [ion binding]; other site 554290004582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 554290004583 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 554290004584 6-phosphofructokinase 2; Provisional; Region: PRK10294 554290004585 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 554290004586 putative substrate binding site [chemical binding]; other site 554290004587 putative ATP binding site [chemical binding]; other site 554290004588 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 554290004589 Phosphotransferase enzyme family; Region: APH; pfam01636 554290004590 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 554290004591 active site 554290004592 ATP binding site [chemical binding]; other site 554290004593 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 554290004594 YniB-like protein; Region: YniB; pfam14002 554290004595 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 554290004596 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 554290004597 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 554290004598 motif II; other site 554290004599 inner membrane protein; Provisional; Region: PRK11648 554290004600 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 554290004601 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 554290004602 cell division modulator; Provisional; Region: PRK10113 554290004603 hydroperoxidase II; Provisional; Region: katE; PRK11249 554290004604 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 554290004605 tetramer interface [polypeptide binding]; other site 554290004606 heme binding pocket [chemical binding]; other site 554290004607 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 554290004608 domain interactions; other site 554290004609 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 554290004610 putative active site [active] 554290004611 YdjC motif; other site 554290004612 Mg binding site [ion binding]; other site 554290004613 putative homodimer interface [polypeptide binding]; other site 554290004614 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 554290004615 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 554290004616 NAD binding site [chemical binding]; other site 554290004617 sugar binding site [chemical binding]; other site 554290004618 divalent metal binding site [ion binding]; other site 554290004619 tetramer (dimer of dimers) interface [polypeptide binding]; other site 554290004620 dimer interface [polypeptide binding]; other site 554290004621 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 554290004622 Cupin domain; Region: Cupin_2; pfam07883 554290004623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290004624 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 554290004625 methionine cluster; other site 554290004626 active site 554290004627 phosphorylation site [posttranslational modification] 554290004628 metal binding site [ion binding]; metal-binding site 554290004629 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 554290004630 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 554290004631 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 554290004632 active site 554290004633 P-loop; other site 554290004634 phosphorylation site [posttranslational modification] 554290004635 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 554290004636 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 554290004637 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 554290004638 homodimer interface [polypeptide binding]; other site 554290004639 NAD binding pocket [chemical binding]; other site 554290004640 ATP binding pocket [chemical binding]; other site 554290004641 Mg binding site [ion binding]; other site 554290004642 active-site loop [active] 554290004643 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 554290004644 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 554290004645 GIY-YIG motif/motif A; other site 554290004646 active site 554290004647 catalytic site [active] 554290004648 putative DNA binding site [nucleotide binding]; other site 554290004649 metal binding site [ion binding]; metal-binding site 554290004650 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 554290004651 dimer interface [polypeptide binding]; other site 554290004652 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 554290004653 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 554290004654 putative active site [active] 554290004655 Zn binding site [ion binding]; other site 554290004656 succinylarginine dihydrolase; Provisional; Region: PRK13281 554290004657 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 554290004658 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 554290004659 NAD(P) binding site [chemical binding]; other site 554290004660 catalytic residues [active] 554290004661 arginine succinyltransferase; Provisional; Region: PRK10456 554290004662 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 554290004663 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 554290004664 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 554290004665 inhibitor-cofactor binding pocket; inhibition site 554290004666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290004667 catalytic residue [active] 554290004668 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 554290004669 putative catalytic site [active] 554290004670 putative phosphate binding site [ion binding]; other site 554290004671 active site 554290004672 metal binding site A [ion binding]; metal-binding site 554290004673 DNA binding site [nucleotide binding] 554290004674 putative AP binding site [nucleotide binding]; other site 554290004675 putative metal binding site B [ion binding]; other site 554290004676 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 554290004677 active site 554290004678 8-oxo-dGMP binding site [chemical binding]; other site 554290004679 nudix motif; other site 554290004680 metal binding site [ion binding]; metal-binding site 554290004681 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 554290004682 glutamate dehydrogenase; Provisional; Region: PRK09414 554290004683 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 554290004684 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 554290004685 NAD(P) binding site [chemical binding]; other site 554290004686 DNA topoisomerase III; Provisional; Region: PRK07726 554290004687 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 554290004688 active site 554290004689 putative interdomain interaction site [polypeptide binding]; other site 554290004690 putative metal-binding site [ion binding]; other site 554290004691 putative nucleotide binding site [chemical binding]; other site 554290004692 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 554290004693 domain I; other site 554290004694 DNA binding groove [nucleotide binding] 554290004695 phosphate binding site [ion binding]; other site 554290004696 domain II; other site 554290004697 domain III; other site 554290004698 nucleotide binding site [chemical binding]; other site 554290004699 catalytic site [active] 554290004700 domain IV; other site 554290004701 selenophosphate synthetase; Provisional; Region: PRK00943 554290004702 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 554290004703 dimerization interface [polypeptide binding]; other site 554290004704 putative ATP binding site [chemical binding]; other site 554290004705 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 554290004706 putative FMN binding site [chemical binding]; other site 554290004707 protease 4; Provisional; Region: PRK10949 554290004708 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 554290004709 tandem repeat interface [polypeptide binding]; other site 554290004710 oligomer interface [polypeptide binding]; other site 554290004711 active site residues [active] 554290004712 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 554290004713 tandem repeat interface [polypeptide binding]; other site 554290004714 oligomer interface [polypeptide binding]; other site 554290004715 active site residues [active] 554290004716 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 554290004717 active site 554290004718 homodimer interface [polypeptide binding]; other site 554290004719 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 554290004720 Isochorismatase family; Region: Isochorismatase; pfam00857 554290004721 catalytic triad [active] 554290004722 metal binding site [ion binding]; metal-binding site 554290004723 conserved cis-peptide bond; other site 554290004724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 554290004725 methionine sulfoxide reductase B; Provisional; Region: PRK00222 554290004726 SelR domain; Region: SelR; pfam01641 554290004727 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 554290004728 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 554290004729 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 554290004730 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 554290004731 active site 554290004732 phosphate binding residues; other site 554290004733 catalytic residues [active] 554290004734 similar to Salmonella typhi CT18 oxidoreductase; Pseudogene due to SNP @nt553 introducing STOP codon in after aa124. Not pseudogene in Paratyphi A strain ATCC9150 (SPA1556) 554290004735 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 554290004736 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 554290004737 FeS/SAM binding site; other site 554290004738 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 554290004739 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 554290004740 PrkA family serine protein kinase; Provisional; Region: PRK15455 554290004741 AAA ATPase domain; Region: AAA_16; pfam13191 554290004742 Walker A motif; other site 554290004743 ATP binding site [chemical binding]; other site 554290004744 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 554290004745 hypothetical protein; Provisional; Region: PRK05325 554290004746 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290004747 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290004748 metal binding site [ion binding]; metal-binding site 554290004749 active site 554290004750 I-site; other site 554290004751 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 554290004752 putative deacylase active site [active] 554290004753 Predicted membrane protein [Function unknown]; Region: COG2707 554290004754 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290004755 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290004756 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 554290004757 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 554290004758 Uncharacterized conserved protein [Function unknown]; Region: COG3189 554290004759 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 554290004760 murein hydrolase B; Provisional; Region: PRK10760; cl17906 554290004761 Domain of unknown function (DUF333); Region: DUF333; pfam03891 554290004762 hypothetical protein; Provisional; Region: PRK10457 554290004763 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 554290004764 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 554290004765 leucine export protein LeuE; Provisional; Region: PRK10958 554290004766 chorismate mutase; Provisional; Region: PRK08055 554290004767 Pleckstrin homology-like domain; Region: PH-like; cl17171 554290004768 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 554290004769 transcriptional regulator MirA; Provisional; Region: PRK15043 554290004770 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 554290004771 DNA binding residues [nucleotide binding] 554290004772 dimer interface [polypeptide binding]; other site 554290004773 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 554290004774 DNA binding residues [nucleotide binding] 554290004775 aminoglycoside resistance protein; Provisional; Region: PRK13746 554290004776 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 554290004777 active site 554290004778 NTP binding site [chemical binding]; other site 554290004779 metal binding triad [ion binding]; metal-binding site 554290004780 antibiotic binding site [chemical binding]; other site 554290004781 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 554290004782 zinc/cadmium-binding protein; Provisional; Region: PRK10306 554290004783 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 554290004784 dimerization interface [polypeptide binding]; other site 554290004785 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 554290004786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290004787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290004788 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 554290004789 Walker A/P-loop; other site 554290004790 ATP binding site [chemical binding]; other site 554290004791 Q-loop/lid; other site 554290004792 ABC transporter signature motif; other site 554290004793 Walker B; other site 554290004794 D-loop; other site 554290004795 H-loop/switch region; other site 554290004796 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290004797 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 554290004798 Walker A/P-loop; other site 554290004799 ATP binding site [chemical binding]; other site 554290004800 Q-loop/lid; other site 554290004801 ABC transporter signature motif; other site 554290004802 Walker B; other site 554290004803 D-loop; other site 554290004804 H-loop/switch region; other site 554290004805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 554290004806 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 554290004807 dimer interface [polypeptide binding]; other site 554290004808 conserved gate region; other site 554290004809 putative PBP binding loops; other site 554290004810 ABC-ATPase subunit interface; other site 554290004811 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 554290004812 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 554290004813 dimer interface [polypeptide binding]; other site 554290004814 conserved gate region; other site 554290004815 putative PBP binding loops; other site 554290004816 ABC-ATPase subunit interface; other site 554290004817 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 554290004818 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 554290004819 TRL-like protein family; Region: TRL; pfam13146 554290004820 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 554290004821 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 554290004822 BNR repeat-like domain; Region: BNR_2; pfam13088 554290004825 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 554290004826 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 554290004827 DNA-binding site [nucleotide binding]; DNA binding site 554290004828 RNA-binding motif; other site 554290004829 Ricin-type beta-trefoil; Region: RICIN; smart00458 554290004830 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 554290004831 putative sugar binding sites [chemical binding]; other site 554290004832 Q-X-W motif; other site 554290004833 DinI-like family; Region: DinI; pfam06183 554290004835 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 554290004836 putative catalytic site [active] 554290004837 CdtC interface [polypeptide binding]; other site 554290004838 heterotrimer interface [polypeptide binding]; other site 554290004839 CdtA interface [polypeptide binding]; other site 554290004840 putative metal binding site [ion binding]; other site 554290004841 putative phosphate binding site [ion binding]; other site 554290004842 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 554290004843 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 554290004844 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 554290004845 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 554290004846 pertussis toxin-like subunit ArtA; Provisional; Region: PRK15272 554290004847 subtilase cytotoxin subunit B; Provisional; Region: PRK15266 554290004848 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 554290004849 isocitrate dehydrogenase; Validated; Region: PRK07362 554290004850 isocitrate dehydrogenase; Reviewed; Region: PRK07006 554290004851 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 554290004852 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 554290004853 probable active site [active] 554290004854 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 554290004855 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 554290004856 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 554290004857 nudix motif; other site 554290004858 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 554290004859 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 554290004860 putative lysogenization regulator; Reviewed; Region: PRK00218 554290004861 adenylosuccinate lyase; Provisional; Region: PRK09285 554290004862 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 554290004863 tetramer interface [polypeptide binding]; other site 554290004864 active site 554290004865 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 554290004866 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 554290004867 active site 554290004868 phosphorylation site [posttranslational modification] 554290004869 intermolecular recognition site; other site 554290004870 dimerization interface [polypeptide binding]; other site 554290004871 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 554290004872 DNA binding site [nucleotide binding] 554290004873 sensor protein PhoQ; Provisional; Region: PRK10815 554290004874 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 554290004875 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 554290004876 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 554290004877 ATP binding site [chemical binding]; other site 554290004878 Mg2+ binding site [ion binding]; other site 554290004879 G-X-G motif; other site 554290004880 Uncharacterized conserved protein [Function unknown]; Region: COG2850 554290004881 Cupin domain; Region: Cupin_2; cl17218 554290004882 Tetratricopeptide repeat; Region: TPR_12; pfam13424 554290004883 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 554290004884 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 554290004885 metal binding site [ion binding]; metal-binding site 554290004886 dimer interface [polypeptide binding]; other site 554290004887 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 554290004888 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290004889 Walker A/P-loop; other site 554290004890 ATP binding site [chemical binding]; other site 554290004891 Q-loop/lid; other site 554290004892 ABC transporter signature motif; other site 554290004893 Walker B; other site 554290004894 D-loop; other site 554290004895 H-loop/switch region; other site 554290004896 TOBE domain; Region: TOBE_2; pfam08402 554290004897 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 554290004898 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 554290004899 dimer interface [polypeptide binding]; other site 554290004900 conserved gate region; other site 554290004901 putative PBP binding loops; other site 554290004902 ABC-ATPase subunit interface; other site 554290004903 secreted effector protein SifA; Reviewed; Region: sifA; PRK09498 554290004904 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 554290004905 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 554290004906 dimer interface [polypeptide binding]; other site 554290004907 conserved gate region; other site 554290004908 putative PBP binding loops; other site 554290004909 ABC-ATPase subunit interface; other site 554290004910 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 554290004911 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 554290004912 NAD-dependent deacetylase; Provisional; Region: PRK00481 554290004913 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 554290004914 NAD+ binding site [chemical binding]; other site 554290004915 substrate binding site [chemical binding]; other site 554290004916 Zn binding site [ion binding]; other site 554290004917 fructokinase; Reviewed; Region: PRK09557 554290004918 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290004919 nucleotide binding site [chemical binding]; other site 554290004920 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 554290004921 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 554290004922 FtsX-like permease family; Region: FtsX; pfam02687 554290004923 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 554290004924 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 554290004925 Walker A/P-loop; other site 554290004926 ATP binding site [chemical binding]; other site 554290004927 Q-loop/lid; other site 554290004928 ABC transporter signature motif; other site 554290004929 Walker B; other site 554290004930 D-loop; other site 554290004931 H-loop/switch region; other site 554290004932 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 554290004933 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 554290004934 FtsX-like permease family; Region: FtsX; pfam02687 554290004935 transcription-repair coupling factor; Provisional; Region: PRK10689 554290004936 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 554290004937 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 554290004938 ATP binding site [chemical binding]; other site 554290004939 putative Mg++ binding site [ion binding]; other site 554290004940 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 554290004941 nucleotide binding region [chemical binding]; other site 554290004942 ATP-binding site [chemical binding]; other site 554290004943 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 554290004944 L,D-transpeptidase; Provisional; Region: PRK10190 554290004945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290004946 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290004947 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290004948 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290004949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 554290004950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290004951 hypothetical protein; Provisional; Region: PRK11280 554290004952 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 554290004953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290004954 hypothetical protein; Provisional; Region: PRK04940 554290004955 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 554290004956 beta-hexosaminidase; Provisional; Region: PRK05337 554290004957 thiamine kinase; Region: ycfN_thiK; TIGR02721 554290004958 thiamine kinase; Provisional; Region: thiK; PRK10271 554290004959 substrate binding site [chemical binding]; other site 554290004960 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 554290004961 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 554290004962 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 554290004963 putative dimer interface [polypeptide binding]; other site 554290004964 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 554290004965 nucleotide binding site/active site [active] 554290004966 HIT family signature motif; other site 554290004967 catalytic residue [active] 554290004969 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 554290004970 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 554290004971 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 554290004972 active site turn [active] 554290004973 phosphorylation site [posttranslational modification] 554290004974 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 554290004975 active site 554290004976 DNA polymerase III subunit delta'; Validated; Region: PRK07993 554290004977 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 554290004978 thymidylate kinase; Validated; Region: tmk; PRK00698 554290004979 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 554290004980 TMP-binding site; other site 554290004981 ATP-binding site [chemical binding]; other site 554290004982 conserved hypothetical protein, YceG family; Region: TIGR00247 554290004983 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 554290004984 dimerization interface [polypeptide binding]; other site 554290004985 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 554290004986 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 554290004987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290004988 catalytic residue [active] 554290004989 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 554290004990 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 554290004991 dimer interface [polypeptide binding]; other site 554290004992 active site 554290004993 acyl carrier protein; Provisional; Region: acpP; PRK00982 554290004994 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 554290004995 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 554290004996 NAD(P) binding site [chemical binding]; other site 554290004997 homotetramer interface [polypeptide binding]; other site 554290004998 homodimer interface [polypeptide binding]; other site 554290004999 active site 554290005000 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 554290005001 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 554290005002 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 554290005003 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 554290005004 dimer interface [polypeptide binding]; other site 554290005005 active site 554290005006 CoA binding pocket [chemical binding]; other site 554290005007 putative phosphate acyltransferase; Provisional; Region: PRK05331 554290005008 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 554290005009 hypothetical protein; Provisional; Region: PRK11193 554290005010 Maf-like protein; Region: Maf; pfam02545 554290005011 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 554290005012 active site 554290005013 dimer interface [polypeptide binding]; other site 554290005014 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 554290005015 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 554290005016 RNA binding surface [nucleotide binding]; other site 554290005017 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 554290005018 active site 554290005019 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 554290005020 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 554290005021 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 554290005022 homodimer interface [polypeptide binding]; other site 554290005023 oligonucleotide binding site [chemical binding]; other site 554290005024 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 554290005025 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 554290005026 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 554290005027 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 554290005028 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 554290005029 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 554290005030 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 554290005031 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 554290005032 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 554290005033 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 554290005034 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 554290005035 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 554290005036 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 554290005037 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 554290005038 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 554290005039 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 554290005040 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 554290005041 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 554290005042 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 554290005043 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 554290005044 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 554290005045 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 554290005046 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 554290005047 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 554290005048 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 554290005049 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 554290005050 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 554290005051 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 554290005052 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 554290005053 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 554290005054 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 554290005055 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 554290005056 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 554290005057 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 554290005058 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 554290005059 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 554290005060 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 554290005061 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 554290005062 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 554290005063 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 554290005064 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 554290005065 hypothetical protein; Provisional; Region: PRK11239 554290005066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 554290005067 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 554290005068 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 554290005069 multidrug resistance protein MdtH; Provisional; Region: PRK11646 554290005070 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 554290005071 putative substrate translocation pore; other site 554290005072 glutaredoxin 2; Provisional; Region: PRK10387 554290005073 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 554290005074 C-terminal domain interface [polypeptide binding]; other site 554290005075 GSH binding site (G-site) [chemical binding]; other site 554290005076 catalytic residues [active] 554290005077 putative dimer interface [polypeptide binding]; other site 554290005078 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 554290005079 N-terminal domain interface [polypeptide binding]; other site 554290005080 lipoprotein; Provisional; Region: PRK10598 554290005081 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 554290005082 active site 554290005083 substrate binding pocket [chemical binding]; other site 554290005084 dimer interface [polypeptide binding]; other site 554290005085 DNA damage-inducible protein I; Provisional; Region: PRK10597 554290005086 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 554290005087 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 554290005088 hydroxyglutarate oxidase; Provisional; Region: PRK11728 554290005089 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 554290005090 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 554290005091 hypothetical protein; Provisional; Region: PRK03757 554290005092 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 554290005093 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 554290005094 active site residue [active] 554290005095 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 554290005096 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 554290005097 putative acyl-acceptor binding pocket; other site 554290005098 drug efflux system protein MdtG; Provisional; Region: PRK09874 554290005099 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 554290005100 putative substrate translocation pore; other site 554290005101 secY/secA suppressor protein; Provisional; Region: PRK11467 554290005102 lipoprotein; Provisional; Region: PRK10175 554290005103 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 554290005104 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 554290005105 Ligand binding site; other site 554290005106 DXD motif; other site 554290005107 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 554290005108 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 554290005109 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 554290005110 Acyltransferase family; Region: Acyl_transf_3; pfam01757 554290005111 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 554290005112 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 554290005113 putative active site [active] 554290005114 catalytic site [active] 554290005115 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 554290005116 putative active site [active] 554290005117 catalytic site [active] 554290005118 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 554290005119 putative ADP-ribose binding site [chemical binding]; other site 554290005120 putative active site [active] 554290005121 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 554290005122 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 554290005123 major curlin subunit; Provisional; Region: csgA; PRK10051 554290005124 Curlin associated repeat; Region: Curlin_rpt; pfam07012 554290005125 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 554290005126 Curlin associated repeat; Region: Curlin_rpt; pfam07012 554290005127 Curlin associated repeat; Region: Curlin_rpt; pfam07012 554290005128 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 554290005129 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 554290005130 DNA binding residues [nucleotide binding] 554290005131 dimerization interface [polypeptide binding]; other site 554290005132 curli assembly protein CsgE; Provisional; Region: PRK10386 554290005134 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 554290005135 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 554290005136 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 554290005137 putative hydrolase; Validated; Region: PRK09248 554290005138 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 554290005139 active site 554290005140 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 554290005141 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 554290005142 putative ligand binding site [chemical binding]; other site 554290005143 NAD binding site [chemical binding]; other site 554290005144 dimerization interface [polypeptide binding]; other site 554290005145 catalytic site [active] 554290005146 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 554290005147 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 554290005148 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 554290005149 putative sialic acid transporter; Provisional; Region: PRK12307 554290005150 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 554290005151 putative substrate translocation pore; other site 554290005152 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 554290005154 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 554290005155 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 554290005156 putative active site cavity [active] 554290005157 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 554290005158 Na binding site [ion binding]; other site 554290005159 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 554290005160 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 554290005161 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 554290005162 putative active site [active] 554290005163 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 554290005164 hypothetical protein; Provisional; Region: PRK10536 554290005165 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 554290005166 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 554290005167 Na binding site [ion binding]; other site 554290005168 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 554290005169 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 554290005170 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 554290005171 Glutamate binding site [chemical binding]; other site 554290005172 NAD binding site [chemical binding]; other site 554290005173 catalytic residues [active] 554290005174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 554290005175 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 554290005176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290005177 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 554290005178 General stress protein [General function prediction only]; Region: GsiB; COG3729 554290005179 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 554290005180 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 554290005181 hypothetical protein; Provisional; Region: PRK10174 554290005182 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 554290005183 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 554290005184 catalytic core [active] 554290005185 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 554290005186 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 554290005187 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 554290005188 catalytic residues [active] 554290005189 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 554290005190 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 554290005191 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 554290005192 catalytic residues [active] 554290005194 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 554290005195 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 554290005196 HSP70 interaction site [polypeptide binding]; other site 554290005197 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 554290005198 substrate binding site [polypeptide binding]; other site 554290005199 dimer interface [polypeptide binding]; other site 554290005200 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 554290005201 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 554290005202 anti-adapter protein IraM; Provisional; Region: PRK09919 554290005203 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 554290005204 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 554290005205 Cupin domain; Region: Cupin_2; pfam07883 554290005206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290005207 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 554290005208 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 554290005209 putative substrate translocation pore; other site 554290005210 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 554290005211 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 554290005212 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 554290005213 putative substrate binding pocket [chemical binding]; other site 554290005214 trimer interface [polypeptide binding]; other site 554290005215 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 554290005216 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 554290005217 putative active site [active] 554290005218 putative metal binding site [ion binding]; other site 554290005219 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 554290005220 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 554290005221 NAD binding site [chemical binding]; other site 554290005222 catalytic residues [active] 554290005224 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 554290005225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 554290005226 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 554290005227 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 554290005228 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 554290005229 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 554290005230 active site 554290005231 homotetramer interface [polypeptide binding]; other site 554290005232 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 554290005233 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 554290005234 active site 554290005235 phosphorylation site [posttranslational modification] 554290005236 intermolecular recognition site; other site 554290005237 dimerization interface [polypeptide binding]; other site 554290005238 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 554290005239 DNA binding site [nucleotide binding] 554290005240 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 554290005241 HAMP domain; Region: HAMP; pfam00672 554290005242 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 554290005243 dimer interface [polypeptide binding]; other site 554290005244 phosphorylation site [posttranslational modification] 554290005245 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 554290005246 ATP binding site [chemical binding]; other site 554290005247 Mg2+ binding site [ion binding]; other site 554290005248 G-X-G motif; other site 554290005250 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 554290005251 inositol phosphate phosphatase SopB; Provisional; Region: PRK15378 554290005252 Enterobacterial virulence protein IpgD; Region: IpgD; pfam05925 554290005253 type III secretion chaperone protein SigE; Provisional; Region: PRK15202 554290005254 secreted effector protein PipB; Provisional; Region: PRK15197 554290005255 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290005256 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290005257 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290005258 PipA protein; Region: PipA; pfam07108 554290005259 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 554290005260 YccA-like proteins; Region: YccA_like; cd10433 554290005261 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 554290005262 sulfur transfer protein TusE; Provisional; Region: PRK11508 554290005263 acylphosphatase; Provisional; Region: PRK14426 554290005264 Cupin domain; Region: Cupin_2; cl17218 554290005265 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290005266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290005268 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 554290005269 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 554290005270 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 554290005271 putative RNA binding site [nucleotide binding]; other site 554290005272 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 554290005273 S-adenosylmethionine binding site [chemical binding]; other site 554290005274 heat shock protein HspQ; Provisional; Region: PRK14129 554290005275 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 554290005276 hypothetical protein; Provisional; Region: PRK03641 554290005277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 554290005278 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 554290005279 active site 554290005280 dimer interfaces [polypeptide binding]; other site 554290005281 catalytic residues [active] 554290005282 DNA helicase IV; Provisional; Region: helD; PRK11054 554290005283 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 554290005284 Part of AAA domain; Region: AAA_19; pfam13245 554290005285 Family description; Region: UvrD_C_2; pfam13538 554290005286 Predicted membrane protein [Function unknown]; Region: COG3304 554290005287 Domain of unknown function (DUF307); Region: DUF307; pfam03733 554290005288 Domain of unknown function (DUF307); Region: DUF307; pfam03733 554290005289 TIGR01666 family membrane protein; Region: YCCS 554290005290 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 554290005291 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 554290005292 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 554290005293 TfoX C-terminal domain; Region: TfoX_C; pfam04994 554290005294 cell division inhibitor SulA; Region: sula; TIGR00623 554290005295 outer membrane protein A; Reviewed; Region: PRK10808 554290005296 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 554290005297 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 554290005298 ligand binding site [chemical binding]; other site 554290005299 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 554290005300 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 554290005301 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 554290005302 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 554290005303 active site 1 [active] 554290005304 dimer interface [polypeptide binding]; other site 554290005305 active site 2 [active] 554290005306 ribosome modulation factor; Provisional; Region: PRK14563 554290005307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 554290005308 Protein of unknown function (DUF330); Region: DUF330; pfam03886 554290005309 paraquat-inducible protein B; Provisional; Region: PRK10807 554290005310 mce related protein; Region: MCE; pfam02470 554290005311 mce related protein; Region: MCE; pfam02470 554290005312 mce related protein; Region: MCE; pfam02470 554290005313 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 554290005314 Paraquat-inducible protein A; Region: PqiA; pfam04403 554290005315 Paraquat-inducible protein A; Region: PqiA; pfam04403 554290005316 ABC transporter ATPase component; Reviewed; Region: PRK11147 554290005317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005319 Walker A/P-loop; other site 554290005320 Walker A/P-loop; other site 554290005321 ATP binding site [chemical binding]; other site 554290005322 ATP binding site [chemical binding]; other site 554290005323 Q-loop/lid; other site 554290005324 Q-loop/lid; other site 554290005325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290005326 ABC transporter signature motif; other site 554290005327 Walker B; other site 554290005328 D-loop; other site 554290005329 ABC transporter; Region: ABC_tran_2; pfam12848 554290005330 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290005331 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 554290005332 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 554290005333 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 554290005334 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 554290005335 S-adenosylmethionine binding site [chemical binding]; other site 554290005336 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 554290005337 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 554290005338 MOSC domain; Region: MOSC; pfam03473 554290005339 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 554290005340 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 554290005341 catalytic loop [active] 554290005342 iron binding site [ion binding]; other site 554290005343 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 554290005344 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 554290005345 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 554290005346 quinone interaction residues [chemical binding]; other site 554290005347 active site 554290005348 catalytic residues [active] 554290005349 FMN binding site [chemical binding]; other site 554290005350 substrate binding site [chemical binding]; other site 554290005351 aminopeptidase N; Provisional; Region: pepN; PRK14015 554290005352 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 554290005353 active site 554290005354 Zn binding site [ion binding]; other site 554290005355 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 554290005356 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 554290005357 active site 554290005358 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 554290005359 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 554290005360 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 554290005361 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 554290005362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290005363 catalytic residue [active] 554290005364 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 554290005365 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 554290005366 putative DNA binding site [nucleotide binding]; other site 554290005367 putative Zn2+ binding site [ion binding]; other site 554290005368 AsnC family; Region: AsnC_trans_reg; pfam01037 554290005369 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 554290005370 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 554290005371 putative dimer interface [polypeptide binding]; other site 554290005372 putative anticodon binding site; other site 554290005373 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 554290005374 homodimer interface [polypeptide binding]; other site 554290005375 motif 1; other site 554290005376 motif 2; other site 554290005377 active site 554290005378 motif 3; other site 554290005379 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290005380 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 554290005381 trimer interface [polypeptide binding]; other site 554290005382 eyelet of channel; other site 554290005383 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 554290005384 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 554290005385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290005386 homodimer interface [polypeptide binding]; other site 554290005387 catalytic residue [active] 554290005388 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 554290005389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 554290005390 Peptidase M15; Region: Peptidase_M15_3; cl01194 554290005391 murein L,D-transpeptidase; Provisional; Region: PRK10594 554290005392 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 554290005393 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290005394 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290005395 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 554290005396 P-loop containing region of AAA domain; Region: AAA_29; cl17516 554290005397 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 554290005398 condesin subunit E; Provisional; Region: PRK05256 554290005399 condesin subunit F; Provisional; Region: PRK05260 554290005400 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 554290005401 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 554290005402 S-adenosylmethionine binding site [chemical binding]; other site 554290005403 Uncharacterized conserved protein [Function unknown]; Region: COG1434 554290005404 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 554290005405 putative active site [active] 554290005406 hypothetical protein; Provisional; Region: PRK10593 554290005407 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 554290005408 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 554290005409 Ligand binding site; other site 554290005410 oligomer interface; other site 554290005411 hypothetical protein; Provisional; Region: PRK11827 554290005412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 554290005413 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 554290005414 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 554290005415 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 554290005416 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 554290005417 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290005418 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 554290005419 Walker A/P-loop; other site 554290005420 ATP binding site [chemical binding]; other site 554290005421 Q-loop/lid; other site 554290005422 ABC transporter signature motif; other site 554290005423 Walker B; other site 554290005424 D-loop; other site 554290005425 H-loop/switch region; other site 554290005427 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 554290005428 IHF dimer interface [polypeptide binding]; other site 554290005429 IHF - DNA interface [nucleotide binding]; other site 554290005430 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 554290005431 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 554290005432 RNA binding site [nucleotide binding]; other site 554290005433 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 554290005434 RNA binding site [nucleotide binding]; other site 554290005435 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 554290005436 RNA binding site [nucleotide binding]; other site 554290005437 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 554290005438 RNA binding site [nucleotide binding]; other site 554290005439 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 554290005440 RNA binding site [nucleotide binding]; other site 554290005441 cytidylate kinase; Provisional; Region: cmk; PRK00023 554290005442 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 554290005443 CMP-binding site; other site 554290005444 The sites determining sugar specificity; other site 554290005445 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 554290005446 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 554290005447 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 554290005448 hinge; other site 554290005449 active site 554290005450 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 554290005451 homodimer interface [polypeptide binding]; other site 554290005452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290005453 substrate-cofactor binding pocket; other site 554290005454 catalytic residue [active] 554290005455 Predicted membrane protein [Function unknown]; Region: COG2323 554290005456 uncharacterized domain; Region: TIGR00702 554290005457 YcaO-like family; Region: YcaO; pfam02624 554290005458 formate transporter; Provisional; Region: PRK10805 554290005459 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 554290005460 Pyruvate formate lyase 1; Region: PFL1; cd01678 554290005461 coenzyme A binding site [chemical binding]; other site 554290005462 active site 554290005463 catalytic residues [active] 554290005464 glycine loop; other site 554290005466 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 554290005467 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 554290005468 FeS/SAM binding site; other site 554290005469 inner membrane transporter YjeM; Provisional; Region: PRK15238 554290005470 putative MFS family transporter protein; Provisional; Region: PRK03633 554290005471 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 554290005472 putative substrate translocation pore; other site 554290005474 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 554290005475 4Fe-4S binding domain; Region: Fer4; pfam00037 554290005476 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 554290005477 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 554290005478 putative [Fe4-S4] binding site [ion binding]; other site 554290005479 putative molybdopterin cofactor binding site [chemical binding]; other site 554290005480 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 554290005481 putative molybdopterin cofactor binding site; other site 554290005482 seryl-tRNA synthetase; Provisional; Region: PRK05431 554290005483 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 554290005484 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 554290005485 dimer interface [polypeptide binding]; other site 554290005486 active site 554290005487 motif 1; other site 554290005488 motif 2; other site 554290005489 motif 3; other site 554290005490 recombination factor protein RarA; Reviewed; Region: PRK13342 554290005491 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 554290005492 Walker A motif; other site 554290005493 ATP binding site [chemical binding]; other site 554290005494 Walker B motif; other site 554290005495 arginine finger; other site 554290005496 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 554290005497 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 554290005498 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 554290005499 DNA translocase FtsK; Provisional; Region: PRK10263 554290005500 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 554290005501 DNA translocase FtsK; Provisional; Region: PRK10263 554290005502 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 554290005503 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 554290005504 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 554290005505 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 554290005506 putative DNA binding site [nucleotide binding]; other site 554290005507 putative Zn2+ binding site [ion binding]; other site 554290005508 AsnC family; Region: AsnC_trans_reg; pfam01037 554290005509 thioredoxin reductase; Provisional; Region: PRK10262 554290005510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290005511 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290005512 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 554290005513 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290005514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005515 Walker A/P-loop; other site 554290005516 ATP binding site [chemical binding]; other site 554290005517 Q-loop/lid; other site 554290005518 ABC transporter signature motif; other site 554290005519 Walker B; other site 554290005520 D-loop; other site 554290005521 H-loop/switch region; other site 554290005522 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 554290005523 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290005524 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005525 Walker A/P-loop; other site 554290005526 ATP binding site [chemical binding]; other site 554290005527 Q-loop/lid; other site 554290005528 ABC transporter signature motif; other site 554290005529 Walker B; other site 554290005530 D-loop; other site 554290005531 H-loop/switch region; other site 554290005532 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 554290005533 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 554290005534 rRNA binding site [nucleotide binding]; other site 554290005535 predicted 30S ribosome binding site; other site 554290005536 LysR family transcriptional regulator; Provisional; Region: PRK14997 554290005537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290005538 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 554290005539 putative effector binding pocket; other site 554290005540 putative dimerization interface [polypeptide binding]; other site 554290005541 Pirin-related protein [General function prediction only]; Region: COG1741 554290005542 Pirin; Region: Pirin; pfam02678 554290005543 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 554290005544 Isochorismatase family; Region: Isochorismatase; pfam00857 554290005545 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 554290005546 catalytic triad [active] 554290005547 dimer interface [polypeptide binding]; other site 554290005548 conserved cis-peptide bond; other site 554290005549 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 554290005550 DNA binding site [nucleotide binding] 554290005551 active site 554290005552 Int/Topo IB signature motif; other site 554290005554 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 554290005555 Clp amino terminal domain; Region: Clp_N; pfam02861 554290005556 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 554290005557 Walker A motif; other site 554290005558 ATP binding site [chemical binding]; other site 554290005559 Walker B motif; other site 554290005560 arginine finger; other site 554290005561 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 554290005562 Walker A motif; other site 554290005563 ATP binding site [chemical binding]; other site 554290005564 Walker B motif; other site 554290005565 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 554290005566 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 554290005567 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 554290005568 DNA-binding site [nucleotide binding]; DNA binding site 554290005569 RNA-binding motif; other site 554290005570 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 554290005571 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 554290005572 Walker A/P-loop; other site 554290005573 ATP binding site [chemical binding]; other site 554290005574 Q-loop/lid; other site 554290005575 ABC transporter signature motif; other site 554290005576 Walker B; other site 554290005577 D-loop; other site 554290005578 H-loop/switch region; other site 554290005579 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 554290005580 FtsX-like permease family; Region: FtsX; pfam02687 554290005581 macrolide transporter subunit MacA; Provisional; Region: PRK11578 554290005582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290005583 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290005584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 554290005585 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 554290005586 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 554290005587 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 554290005588 putative active site [active] 554290005589 putative metal-binding site [ion binding]; other site 554290005590 Predicted membrane protein [Function unknown]; Region: COG2431 554290005591 hybrid cluster protein; Provisional; Region: PRK05290 554290005592 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 554290005593 ACS interaction site; other site 554290005594 CODH interaction site; other site 554290005595 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 554290005596 hybrid metal cluster; other site 554290005597 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 554290005598 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 554290005599 FAD binding pocket [chemical binding]; other site 554290005600 FAD binding motif [chemical binding]; other site 554290005601 phosphate binding motif [ion binding]; other site 554290005602 beta-alpha-beta structure motif; other site 554290005603 NAD binding pocket [chemical binding]; other site 554290005604 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 554290005605 catalytic loop [active] 554290005606 iron binding site [ion binding]; other site 554290005607 pyruvate dehydrogenase; Provisional; Region: PRK09124 554290005608 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 554290005609 PYR/PP interface [polypeptide binding]; other site 554290005610 dimer interface [polypeptide binding]; other site 554290005611 tetramer interface [polypeptide binding]; other site 554290005612 TPP binding site [chemical binding]; other site 554290005613 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290005614 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 554290005615 TPP-binding site [chemical binding]; other site 554290005616 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 554290005617 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 554290005618 tetramer interface [polypeptide binding]; other site 554290005619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290005620 catalytic residue [active] 554290005621 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 554290005622 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 554290005623 putative NAD(P) binding site [chemical binding]; other site 554290005624 putative active site [active] 554290005625 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 554290005626 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 554290005627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 554290005628 NAD(P) binding site [chemical binding]; other site 554290005629 active site 554290005630 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 554290005631 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 554290005632 amidase catalytic site [active] 554290005633 Zn binding residues [ion binding]; other site 554290005634 substrate binding site [chemical binding]; other site 554290005635 hypothetical protein; Provisional; Region: PRK02877 554290005636 putative lipoprotein; Provisional; Region: PRK10533 554290005637 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 554290005638 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005639 Walker A/P-loop; other site 554290005640 ATP binding site [chemical binding]; other site 554290005641 Q-loop/lid; other site 554290005642 ABC transporter signature motif; other site 554290005643 Walker B; other site 554290005644 D-loop; other site 554290005645 H-loop/switch region; other site 554290005646 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 554290005647 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 554290005648 substrate binding pocket [chemical binding]; other site 554290005649 membrane-bound complex binding site; other site 554290005650 hinge residues; other site 554290005651 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290005652 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 554290005653 dimer interface [polypeptide binding]; other site 554290005654 conserved gate region; other site 554290005655 putative PBP binding loops; other site 554290005656 ABC-ATPase subunit interface; other site 554290005657 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 554290005658 dimer interface [polypeptide binding]; other site 554290005659 conserved gate region; other site 554290005660 putative PBP binding loops; other site 554290005661 ABC-ATPase subunit interface; other site 554290005662 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 554290005663 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 554290005664 substrate binding pocket [chemical binding]; other site 554290005665 membrane-bound complex binding site; other site 554290005666 hinge residues; other site 554290005667 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 554290005668 Sulfatase; Region: Sulfatase; cl17466 554290005669 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 554290005670 active site 554290005671 P-loop; other site 554290005672 phosphorylation site [posttranslational modification] 554290005673 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 554290005674 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 554290005675 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 554290005676 S-adenosylmethionine binding site [chemical binding]; other site 554290005677 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 554290005678 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 554290005679 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 554290005680 dimer interface [polypeptide binding]; other site 554290005681 conserved gate region; other site 554290005682 putative PBP binding loops; other site 554290005683 ABC-ATPase subunit interface; other site 554290005684 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 554290005685 dimer interface [polypeptide binding]; other site 554290005686 conserved gate region; other site 554290005687 putative PBP binding loops; other site 554290005688 ABC-ATPase subunit interface; other site 554290005689 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 554290005690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005691 Walker A/P-loop; other site 554290005692 ATP binding site [chemical binding]; other site 554290005693 Q-loop/lid; other site 554290005694 ABC transporter signature motif; other site 554290005695 Walker B; other site 554290005696 D-loop; other site 554290005697 H-loop/switch region; other site 554290005698 TOBE domain; Region: TOBE_2; pfam08402 554290005699 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 554290005700 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 554290005701 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 554290005702 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 554290005703 RimK-like ATP-grasp domain; Region: RimK; pfam08443 554290005704 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 554290005705 dimer interface [polypeptide binding]; other site 554290005706 FMN binding site [chemical binding]; other site 554290005707 NADPH bind site [chemical binding]; other site 554290005708 Protein of unknown function (DUF1418); Region: DUF1418; cl11648 554290005709 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 554290005710 GSH binding site [chemical binding]; other site 554290005711 catalytic residues [active] 554290005712 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 554290005713 putative transporter; Provisional; Region: PRK04972 554290005714 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 554290005715 TrkA-C domain; Region: TrkA_C; pfam02080 554290005716 TrkA-C domain; Region: TrkA_C; pfam02080 554290005717 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 554290005718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 554290005719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290005720 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 554290005721 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 554290005722 putative substrate translocation pore; other site 554290005723 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290005724 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 554290005725 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 554290005726 active site 554290005727 motif I; other site 554290005728 motif II; other site 554290005729 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 554290005730 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 554290005731 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 554290005732 putative substrate translocation pore; other site 554290005733 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 554290005734 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 554290005735 active site 554290005736 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 554290005737 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290005738 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290005739 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 554290005740 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 554290005741 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 554290005742 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 554290005743 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 554290005744 putative C-terminal domain interface [polypeptide binding]; other site 554290005745 putative GSH binding site (G-site) [chemical binding]; other site 554290005746 putative dimer interface [polypeptide binding]; other site 554290005747 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 554290005748 putative N-terminal domain interface [polypeptide binding]; other site 554290005749 putative dimer interface [polypeptide binding]; other site 554290005750 putative substrate binding pocket (H-site) [chemical binding]; other site 554290005751 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 554290005752 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 554290005753 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 554290005754 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 554290005755 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 554290005756 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 554290005757 FeS/SAM binding site; other site 554290005758 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 554290005759 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 554290005760 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 554290005761 dimer interface [polypeptide binding]; other site 554290005762 conserved gate region; other site 554290005763 putative PBP binding loops; other site 554290005764 ABC-ATPase subunit interface; other site 554290005765 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 554290005766 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 554290005767 dimer interface [polypeptide binding]; other site 554290005768 conserved gate region; other site 554290005769 putative PBP binding loops; other site 554290005770 ABC-ATPase subunit interface; other site 554290005771 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 554290005772 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 554290005773 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 554290005774 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290005775 Walker A/P-loop; other site 554290005776 ATP binding site [chemical binding]; other site 554290005777 Q-loop/lid; other site 554290005778 ABC transporter signature motif; other site 554290005779 Walker B; other site 554290005780 D-loop; other site 554290005781 H-loop/switch region; other site 554290005782 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 554290005783 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290005784 Walker A/P-loop; other site 554290005785 ATP binding site [chemical binding]; other site 554290005786 Q-loop/lid; other site 554290005787 ABC transporter signature motif; other site 554290005788 Walker B; other site 554290005789 D-loop; other site 554290005790 H-loop/switch region; other site 554290005791 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 554290005792 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 554290005793 catalytic nucleophile [active] 554290005794 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 554290005795 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 554290005796 dimer interface [polypeptide binding]; other site 554290005797 putative functional site; other site 554290005798 putative MPT binding site; other site 554290005799 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 554290005800 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 554290005801 ATP binding site [chemical binding]; other site 554290005802 substrate interface [chemical binding]; other site 554290005803 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 554290005804 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 554290005805 FeS/SAM binding site; other site 554290005806 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 554290005807 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 554290005808 dimer interface [polypeptide binding]; other site 554290005809 active site 554290005810 glycine loop; other site 554290005811 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 554290005812 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 554290005813 active site 554290005814 motif I; other site 554290005815 motif II; other site 554290005816 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 554290005817 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 554290005818 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 554290005819 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290005820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290005821 Walker A/P-loop; other site 554290005822 ATP binding site [chemical binding]; other site 554290005823 ABC transporter signature motif; other site 554290005824 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290005825 Walker B; other site 554290005826 ABC transporter; Region: ABC_tran_2; pfam12848 554290005827 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290005828 L,D-transpeptidase; Provisional; Region: PRK10260 554290005829 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290005830 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 554290005831 transmembrane helices; other site 554290005832 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 554290005833 manganese transport regulator MntR; Provisional; Region: PRK11050 554290005834 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 554290005835 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 554290005836 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 554290005837 Sulfatase; Region: Sulfatase; pfam00884 554290005838 outer membrane protein X; Provisional; Region: ompX; PRK09408 554290005840 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 554290005841 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 554290005842 dimerization interface [polypeptide binding]; other site 554290005843 DPS ferroxidase diiron center [ion binding]; other site 554290005844 ion pore; other site 554290005845 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 554290005846 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 554290005847 substrate binding pocket [chemical binding]; other site 554290005848 membrane-bound complex binding site; other site 554290005849 hinge residues; other site 554290005850 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290005851 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 554290005852 dimer interface [polypeptide binding]; other site 554290005853 conserved gate region; other site 554290005854 putative PBP binding loops; other site 554290005855 ABC-ATPase subunit interface; other site 554290005856 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 554290005857 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 554290005858 Walker A/P-loop; other site 554290005859 ATP binding site [chemical binding]; other site 554290005860 Q-loop/lid; other site 554290005861 ABC transporter signature motif; other site 554290005862 Walker B; other site 554290005863 D-loop; other site 554290005864 H-loop/switch region; other site 554290005865 putative mechanosensitive channel protein; Provisional; Region: PRK11465 554290005866 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290005867 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 554290005868 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 554290005869 hypothetical protein; Provisional; Region: PRK11019 554290005870 hypothetical protein; Provisional; Region: PRK10259 554290005871 glycosyl transferase family protein; Provisional; Region: PRK08136 554290005872 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 554290005873 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 554290005874 DEAD_2; Region: DEAD_2; pfam06733 554290005875 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 554290005876 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 554290005877 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 554290005878 ATP binding site [chemical binding]; other site 554290005879 Mg++ binding site [ion binding]; other site 554290005880 motif III; other site 554290005881 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 554290005882 nucleotide binding region [chemical binding]; other site 554290005883 ATP-binding site [chemical binding]; other site 554290005884 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 554290005885 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290005886 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 554290005887 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 554290005888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290005889 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290005890 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 554290005891 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 554290005892 Walker A/P-loop; other site 554290005893 ATP binding site [chemical binding]; other site 554290005894 Q-loop/lid; other site 554290005895 ABC transporter signature motif; other site 554290005896 Walker B; other site 554290005897 D-loop; other site 554290005898 H-loop/switch region; other site 554290005899 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 554290005900 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 554290005901 Walker A/P-loop; other site 554290005902 ATP binding site [chemical binding]; other site 554290005903 Q-loop/lid; other site 554290005904 ABC transporter signature motif; other site 554290005905 Walker B; other site 554290005906 D-loop; other site 554290005907 H-loop/switch region; other site 554290005908 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 554290005909 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 554290005910 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 554290005911 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 554290005912 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 554290005913 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 554290005914 putative catalytic site [active] 554290005915 putative metal binding site [ion binding]; other site 554290005916 putative phosphate binding site [ion binding]; other site 554290005917 cardiolipin synthase 2; Provisional; Region: PRK11263 554290005918 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 554290005919 putative active site [active] 554290005920 catalytic site [active] 554290005921 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 554290005922 putative active site [active] 554290005923 catalytic site [active] 554290005924 Predicted integral membrane protein [Function unknown]; Region: COG0392 554290005925 C-terminal fragment of Q8ZQP6_SALTY (pseudogene) 554290005926 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 554290005927 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 554290005928 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 554290005929 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 554290005930 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 554290005931 MoaE homodimer interface [polypeptide binding]; other site 554290005932 MoaD interaction [polypeptide binding]; other site 554290005933 active site residues [active] 554290005934 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 554290005935 MoaE interaction surface [polypeptide binding]; other site 554290005936 MoeB interaction surface [polypeptide binding]; other site 554290005937 thiocarboxylated glycine; other site 554290005938 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 554290005939 trimer interface [polypeptide binding]; other site 554290005940 dimer interface [polypeptide binding]; other site 554290005941 putative active site [active] 554290005942 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 554290005943 MPT binding site; other site 554290005944 trimer interface [polypeptide binding]; other site 554290005945 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 554290005946 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 554290005947 FeS/SAM binding site; other site 554290005948 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 554290005949 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 554290005950 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 554290005951 putative substrate binding pocket [chemical binding]; other site 554290005952 dimer interface [polypeptide binding]; other site 554290005953 phosphate binding site [ion binding]; other site 554290005955 excinuclease ABC subunit B; Provisional; Region: PRK05298 554290005956 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 554290005957 ATP binding site [chemical binding]; other site 554290005958 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 554290005959 nucleotide binding region [chemical binding]; other site 554290005960 ATP-binding site [chemical binding]; other site 554290005961 Ultra-violet resistance protein B; Region: UvrB; pfam12344 554290005962 UvrB/uvrC motif; Region: UVR; pfam02151 554290005963 AAA domain; Region: AAA_26; pfam13500 554290005964 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 554290005965 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 554290005966 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 554290005967 S-adenosylmethionine binding site [chemical binding]; other site 554290005968 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 554290005969 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 554290005970 substrate-cofactor binding pocket; other site 554290005971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290005972 catalytic residue [active] 554290005973 biotin synthase; Provisional; Region: PRK15108 554290005974 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 554290005975 FeS/SAM binding site; other site 554290005976 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 554290005977 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 554290005978 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 554290005979 inhibitor-cofactor binding pocket; inhibition site 554290005980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290005981 catalytic residue [active] 554290005982 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 554290005983 substrate binding site [chemical binding]; other site 554290005984 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 554290005985 active sites [active] 554290005986 tetramer interface [polypeptide binding]; other site 554290005988 histidine utilization repressor; Provisional; Region: PRK14999 554290005989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290005990 DNA-binding site [nucleotide binding]; DNA binding site 554290005991 UTRA domain; Region: UTRA; pfam07702 554290005992 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 554290005993 putative active site [active] 554290005994 putative metal binding site [ion binding]; other site 554290005995 imidazolonepropionase; Validated; Region: PRK09356 554290005996 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 554290005997 active site 554290005998 acyl-CoA thioesterase; Provisional; Region: PRK10531 554290005999 putative pectinesterase; Region: PLN02432; cl01911 554290006000 6-phosphogluconolactonase; Provisional; Region: PRK11028 554290006001 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 554290006002 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 554290006003 active site 554290006004 motif I; other site 554290006005 motif II; other site 554290006006 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 554290006007 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 554290006008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290006009 Walker A/P-loop; other site 554290006010 ATP binding site [chemical binding]; other site 554290006011 Q-loop/lid; other site 554290006012 ABC transporter signature motif; other site 554290006013 Walker B; other site 554290006014 D-loop; other site 554290006015 H-loop/switch region; other site 554290006016 molybdenum-pterin binding domain; Region: Mop; TIGR00638 554290006017 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 554290006018 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 554290006019 dimer interface [polypeptide binding]; other site 554290006020 conserved gate region; other site 554290006021 putative PBP binding loops; other site 554290006022 ABC-ATPase subunit interface; other site 554290006023 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 554290006024 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 554290006025 substrate binding pocket [chemical binding]; other site 554290006026 membrane-bound complex binding site; other site 554290006027 hinge residues; other site 554290006028 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 554290006029 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 554290006030 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 554290006031 molybdenum-pterin binding domain; Region: Mop; TIGR00638 554290006032 TOBE domain; Region: TOBE; pfam03459 554290006033 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 554290006034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290006035 Walker A/P-loop; other site 554290006036 ATP binding site [chemical binding]; other site 554290006037 Q-loop/lid; other site 554290006038 ABC transporter signature motif; other site 554290006039 Walker B; other site 554290006040 D-loop; other site 554290006041 H-loop/switch region; other site 554290006042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290006043 Walker A/P-loop; other site 554290006044 ATP binding site [chemical binding]; other site 554290006045 Q-loop/lid; other site 554290006046 ABC transporter signature motif; other site 554290006047 Walker B; other site 554290006048 D-loop; other site 554290006049 H-loop/switch region; other site 554290006050 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4714 554290006051 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 554290006052 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 554290006053 NAD binding site [chemical binding]; other site 554290006054 homodimer interface [polypeptide binding]; other site 554290006055 active site 554290006056 substrate binding site [chemical binding]; other site 554290006057 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 554290006058 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 554290006059 dimer interface [polypeptide binding]; other site 554290006060 active site 554290006061 galactokinase; Provisional; Region: PRK05101 554290006062 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 554290006063 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 554290006064 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 554290006065 active site 554290006066 catalytic residues [active] 554290006067 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 554290006068 catalytic core [active] 554290006069 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 554290006070 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 554290006071 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 554290006072 Walker A/P-loop; other site 554290006073 ATP binding site [chemical binding]; other site 554290006074 Q-loop/lid; other site 554290006075 ABC transporter signature motif; other site 554290006076 Walker B; other site 554290006077 D-loop; other site 554290006078 H-loop/switch region; other site 554290006079 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 554290006080 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 554290006081 dimer interface [polypeptide binding]; other site 554290006082 putative PBP binding regions; other site 554290006083 ABC-ATPase subunit interface; other site 554290006084 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 554290006085 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 554290006086 YbgS-like protein; Region: YbgS; pfam13985 554290006087 zinc transporter ZitB; Provisional; Region: PRK03557 554290006088 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 554290006089 quinolinate synthetase; Provisional; Region: PRK09375 554290006090 tol-pal system protein YbgF; Provisional; Region: PRK10803 554290006091 Tetratricopeptide repeat; Region: TPR_6; pfam13174 554290006092 Tetratricopeptide repeat; Region: TPR_6; pfam13174 554290006093 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 554290006094 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 554290006095 ligand binding site [chemical binding]; other site 554290006096 translocation protein TolB; Provisional; Region: tolB; PRK03629 554290006097 TolB amino-terminal domain; Region: TolB_N; pfam04052 554290006098 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 554290006099 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 554290006100 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 554290006101 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 554290006102 TolA C-terminal; Region: TolA; pfam06519 554290006103 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 554290006104 colicin uptake protein TolR; Provisional; Region: PRK11024 554290006105 colicin uptake protein TolQ; Provisional; Region: PRK10801 554290006106 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 554290006107 active site 554290006108 hypothetical protein; Provisional; Region: PRK10588 554290006109 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 554290006110 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 554290006111 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 554290006112 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 554290006113 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 554290006114 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 554290006115 CoA binding domain; Region: CoA_binding; smart00881 554290006116 CoA-ligase; Region: Ligase_CoA; pfam00549 554290006117 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 554290006118 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 554290006119 CoA-ligase; Region: Ligase_CoA; pfam00549 554290006120 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 554290006121 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 554290006122 E3 interaction surface; other site 554290006123 lipoyl attachment site [posttranslational modification]; other site 554290006124 e3 binding domain; Region: E3_binding; pfam02817 554290006125 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 554290006126 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 554290006127 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 554290006128 TPP-binding site [chemical binding]; other site 554290006129 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 554290006130 dimer interface [polypeptide binding]; other site 554290006131 PYR/PP interface [polypeptide binding]; other site 554290006132 TPP binding site [chemical binding]; other site 554290006133 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 554290006134 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 554290006135 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 554290006136 L-aspartate oxidase; Provisional; Region: PRK06175 554290006137 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 554290006138 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 554290006139 SdhC subunit interface [polypeptide binding]; other site 554290006140 proximal heme binding site [chemical binding]; other site 554290006141 cardiolipin binding site; other site 554290006142 Iron-sulfur protein interface; other site 554290006143 proximal quinone binding site [chemical binding]; other site 554290006144 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 554290006145 Iron-sulfur protein interface; other site 554290006146 proximal quinone binding site [chemical binding]; other site 554290006147 SdhD (CybS) interface [polypeptide binding]; other site 554290006148 proximal heme binding site [chemical binding]; other site 554290006149 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 554290006150 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 554290006151 dimer interface [polypeptide binding]; other site 554290006152 active site 554290006153 citrylCoA binding site [chemical binding]; other site 554290006154 NADH binding [chemical binding]; other site 554290006155 cationic pore residues; other site 554290006156 oxalacetate/citrate binding site [chemical binding]; other site 554290006157 coenzyme A binding site [chemical binding]; other site 554290006158 catalytic triad [active] 554290006159 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 554290006160 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 554290006161 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 554290006162 endonuclease VIII; Provisional; Region: PRK10445 554290006163 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 554290006164 DNA binding site [nucleotide binding] 554290006165 catalytic residue [active] 554290006166 putative catalytic residues [active] 554290006167 H2TH interface [polypeptide binding]; other site 554290006168 intercalation triad [nucleotide binding]; other site 554290006169 substrate specificity determining residue; other site 554290006170 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 554290006171 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 554290006172 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 554290006173 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 554290006174 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 554290006175 active site 554290006176 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 554290006177 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 554290006178 active site 554290006179 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 554290006180 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 554290006181 Walker A/P-loop; other site 554290006182 ATP binding site [chemical binding]; other site 554290006183 Q-loop/lid; other site 554290006184 ABC transporter signature motif; other site 554290006185 Walker B; other site 554290006186 D-loop; other site 554290006187 H-loop/switch region; other site 554290006188 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 554290006189 ABC-2 type transporter; Region: ABC2_membrane; cl17235 554290006190 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 554290006191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 554290006192 putative ADP-binding pocket [chemical binding]; other site 554290006193 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 554290006194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 554290006195 UDP-galactopyranose mutase; Region: GLF; pfam03275 554290006197 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 554290006198 active site 554290006199 DNA binding site [nucleotide binding] 554290006200 Int/Topo IB signature motif; other site 554290006201 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 554290006202 putative active site [active] 554290006203 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 554290006204 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 554290006205 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 554290006206 Uncharacterized conserved protein [Function unknown]; Region: COG0327 554290006207 metal-binding protein; Provisional; Region: PRK10799 554290006208 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 554290006209 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 554290006210 putative substrate translocation pore; other site 554290006211 POT family; Region: PTR2; pfam00854 554290006212 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 554290006213 DNA photolyase; Region: DNA_photolyase; pfam00875 554290006214 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 554290006215 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 554290006216 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 554290006217 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 554290006218 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 554290006219 sensor protein KdpD; Provisional; Region: PRK10490 554290006220 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 554290006221 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 554290006222 Ligand Binding Site [chemical binding]; other site 554290006223 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 554290006224 GAF domain; Region: GAF_3; pfam13492 554290006225 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 554290006226 dimer interface [polypeptide binding]; other site 554290006227 phosphorylation site [posttranslational modification] 554290006228 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 554290006229 ATP binding site [chemical binding]; other site 554290006230 Mg2+ binding site [ion binding]; other site 554290006231 G-X-G motif; other site 554290006232 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 554290006233 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 554290006234 active site 554290006235 phosphorylation site [posttranslational modification] 554290006236 intermolecular recognition site; other site 554290006237 dimerization interface [polypeptide binding]; other site 554290006238 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 554290006239 DNA binding site [nucleotide binding] 554290006240 ornithine decarboxylase; Provisional; Region: PRK13578 554290006241 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 554290006242 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 554290006243 homodimer interface [polypeptide binding]; other site 554290006244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290006245 catalytic residue [active] 554290006246 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 554290006247 putrescine transporter; Provisional; Region: potE; PRK10655 554290006248 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 554290006249 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 554290006250 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 554290006251 active site 554290006252 substrate binding site [chemical binding]; other site 554290006253 metal binding site [ion binding]; metal-binding site 554290006254 replication initiation regulator SeqA; Provisional; Region: PRK11187 554290006255 acyl-CoA esterase; Provisional; Region: PRK10673 554290006256 PGAP1-like protein; Region: PGAP1; pfam07819 554290006257 LexA regulated protein; Provisional; Region: PRK11675 554290006258 flavodoxin FldA; Validated; Region: PRK09267 554290006259 ferric uptake regulator; Provisional; Region: fur; PRK09462 554290006260 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 554290006261 metal binding site 2 [ion binding]; metal-binding site 554290006262 putative DNA binding helix; other site 554290006263 metal binding site 1 [ion binding]; metal-binding site 554290006264 dimer interface [polypeptide binding]; other site 554290006265 structural Zn2+ binding site [ion binding]; other site 554290006266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290006267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290006268 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 554290006269 putative dimerization interface [polypeptide binding]; other site 554290006270 tricarballylate dehydrogenase; Validated; Region: PRK08274 554290006271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290006272 tricarballylate utilization protein B; Provisional; Region: PRK15033 554290006273 citrate-proton symporter; Provisional; Region: PRK15075 554290006274 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 554290006275 putative substrate translocation pore; other site 554290006276 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 554290006277 YbfN-like lipoprotein; Region: YbfN; pfam13982 554290006278 outer membrane porin, OprD family; Region: OprD; pfam03573 554290006279 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 554290006280 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 554290006281 active site 554290006282 HIGH motif; other site 554290006283 nucleotide binding site [chemical binding]; other site 554290006284 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 554290006285 KMSKS motif; other site 554290006286 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 554290006287 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 554290006288 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 554290006289 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 554290006290 active site turn [active] 554290006291 phosphorylation site [posttranslational modification] 554290006292 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 554290006293 HPr interaction site; other site 554290006294 glycerol kinase (GK) interaction site [polypeptide binding]; other site 554290006295 active site 554290006296 phosphorylation site [posttranslational modification] 554290006297 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 554290006298 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 554290006299 active site 554290006300 trimer interface [polypeptide binding]; other site 554290006301 allosteric site; other site 554290006302 active site lid [active] 554290006303 hexamer (dimer of trimers) interface [polypeptide binding]; other site 554290006304 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 554290006305 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 554290006306 active site 554290006307 dimer interface [polypeptide binding]; other site 554290006308 MarR family; Region: MarR; pfam01047 554290006309 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 554290006310 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290006311 nucleotide binding site [chemical binding]; other site 554290006312 UMP phosphatase; Provisional; Region: PRK10444 554290006313 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 554290006314 active site 554290006315 motif I; other site 554290006316 motif II; other site 554290006317 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 554290006318 asparagine synthetase B; Provisional; Region: asnB; PRK09431 554290006319 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 554290006320 active site 554290006321 dimer interface [polypeptide binding]; other site 554290006322 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 554290006323 Ligand Binding Site [chemical binding]; other site 554290006324 Molecular Tunnel; other site 554290006325 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 554290006326 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 554290006327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 554290006328 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 554290006329 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 554290006330 FeS/SAM binding site; other site 554290006331 TRAM domain; Region: TRAM; pfam01938 554290006332 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 554290006333 PhoH-like protein; Region: PhoH; pfam02562 554290006334 metal-binding heat shock protein; Provisional; Region: PRK00016 554290006335 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 554290006336 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 554290006337 Transporter associated domain; Region: CorC_HlyC; smart01091 554290006338 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 554290006339 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 554290006340 putative active site [active] 554290006341 catalytic triad [active] 554290006342 putative dimer interface [polypeptide binding]; other site 554290006343 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 554290006344 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 554290006345 substrate binding pocket [chemical binding]; other site 554290006346 membrane-bound complex binding site; other site 554290006347 hinge residues; other site 554290006348 Pseudogene due to SNP @nt119 introducing amber STOP codon after aa39. Not pseudogene in Paratyphi A strain ATCC9150 (SPA2076) 554290006349 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 554290006350 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 554290006351 dimer interface [polypeptide binding]; other site 554290006352 conserved gate region; other site 554290006353 putative PBP binding loops; other site 554290006354 ABC-ATPase subunit interface; other site 554290006355 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 554290006356 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 554290006357 Walker A/P-loop; other site 554290006358 ATP binding site [chemical binding]; other site 554290006359 Q-loop/lid; other site 554290006360 ABC transporter signature motif; other site 554290006361 Walker B; other site 554290006362 D-loop; other site 554290006363 H-loop/switch region; other site 554290006364 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 554290006365 active site 554290006366 tetramer interface [polypeptide binding]; other site 554290006367 hypothetical protein; Provisional; Region: PRK11032 554290006368 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 554290006369 Propionate catabolism activator; Region: PrpR_N; pfam06506 554290006370 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 554290006371 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 554290006372 Walker A motif; other site 554290006373 ATP binding site [chemical binding]; other site 554290006374 Walker B motif; other site 554290006375 arginine finger; other site 554290006376 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 554290006377 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 554290006378 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 554290006379 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 554290006380 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 554290006381 HIGH motif; other site 554290006382 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 554290006383 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 554290006384 active site 554290006385 KMSKS motif; other site 554290006386 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 554290006387 tRNA binding surface [nucleotide binding]; other site 554290006388 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 554290006389 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 554290006390 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 554290006391 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 554290006392 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 554290006393 active site 554290006394 (T/H)XGH motif; other site 554290006395 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 554290006396 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 554290006397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290006398 homodimer interface [polypeptide binding]; other site 554290006399 catalytic residue [active] 554290006400 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 554290006401 catalytic core [active] 554290006402 ribosome-associated protein; Provisional; Region: PRK11538 554290006403 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 554290006404 penicillin-binding protein 2; Provisional; Region: PRK10795 554290006405 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 554290006406 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 554290006407 cell wall shape-determining protein; Provisional; Region: PRK10794 554290006408 rare lipoprotein A; Provisional; Region: PRK10672 554290006409 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 554290006410 Sporulation related domain; Region: SPOR; pfam05036 554290006411 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 554290006412 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 554290006413 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 554290006414 hypothetical protein; Provisional; Region: PRK04998 554290006415 lipoate-protein ligase B; Provisional; Region: PRK14342 554290006416 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 554290006417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290006418 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 554290006419 substrate binding pocket [chemical binding]; other site 554290006420 dimerization interface [polypeptide binding]; other site 554290006421 lipoyl synthase; Provisional; Region: PRK05481 554290006422 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 554290006423 FeS/SAM binding site; other site 554290006424 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 554290006425 Predicted amidohydrolase [General function prediction only]; Region: COG0388 554290006426 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 554290006427 putative active site [active] 554290006428 catalytic triad [active] 554290006429 putative dimer interface [polypeptide binding]; other site 554290006430 chromosome condensation membrane protein; Provisional; Region: PRK14196 554290006431 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 554290006432 DNA-binding site [nucleotide binding]; DNA binding site 554290006433 RNA-binding motif; other site 554290006434 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 554290006435 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 554290006436 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 554290006437 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 554290006438 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 554290006439 active site 554290006440 phosphorylation site [posttranslational modification] 554290006441 intermolecular recognition site; other site 554290006442 dimerization interface [polypeptide binding]; other site 554290006443 Transcriptional regulator; Region: CitT; pfam12431 554290006445 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 554290006446 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 554290006447 putative active site [active] 554290006448 (T/H)XGH motif; other site 554290006449 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 554290006450 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 554290006451 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 554290006452 Coenzyme A transferase; Region: CoA_trans; cl17247 554290006453 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 554290006454 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 554290006455 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 554290006456 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 554290006457 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 554290006458 transmembrane helices; other site 554290006459 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 554290006460 B1 nucleotide binding pocket [chemical binding]; other site 554290006461 B2 nucleotide binding pocket [chemical binding]; other site 554290006462 CAS motifs; other site 554290006463 active site 554290006464 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 554290006465 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 554290006467 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 554290006468 Ligand Binding Site [chemical binding]; other site 554290006469 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 554290006470 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 554290006471 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 554290006472 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 554290006473 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 554290006474 putative [4Fe-4S] binding site [ion binding]; other site 554290006475 putative molybdopterin cofactor binding site [chemical binding]; other site 554290006476 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cd02775 554290006477 molybdopterin cofactor binding site; other site 554290006478 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 554290006479 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 554290006480 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 554290006481 catalytic residue [active] 554290006482 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 554290006483 catalytic residues [active] 554290006484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290006485 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290006486 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 554290006487 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 554290006488 dimer interface [polypeptide binding]; other site 554290006489 decamer (pentamer of dimers) interface [polypeptide binding]; other site 554290006490 catalytic triad [active] 554290006491 peroxidatic and resolving cysteines [active] 554290006492 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 554290006493 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 554290006494 dimerization domain [polypeptide binding]; other site 554290006495 dimer interface [polypeptide binding]; other site 554290006496 catalytic residues [active] 554290006497 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 554290006498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290006499 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 554290006500 dimerization interface [polypeptide binding]; other site 554290006501 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 554290006502 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 554290006503 Active Sites [active] 554290006504 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 554290006505 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 554290006506 ParB-like nuclease domain; Region: ParBc; pfam02195 554290006507 methionine aminotransferase; Validated; Region: PRK09082 554290006508 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 554290006509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290006510 homodimer interface [polypeptide binding]; other site 554290006511 catalytic residue [active] 554290006512 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 554290006513 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 554290006514 putative active site [active] 554290006515 metal binding site [ion binding]; metal-binding site 554290006516 Uncharacterized small protein [Function unknown]; Region: COG2879 554290006517 carbon starvation protein A; Provisional; Region: PRK15015 554290006518 Carbon starvation protein CstA; Region: CstA; pfam02554 554290006519 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 554290006520 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 554290006521 CoenzymeA binding site [chemical binding]; other site 554290006522 subunit interaction site [polypeptide binding]; other site 554290006523 PHB binding site; other site 554290006524 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 554290006525 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 554290006526 putative NAD(P) binding site [chemical binding]; other site 554290006527 active site 554290006528 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 554290006529 hydrophobic substrate binding pocket; other site 554290006530 Isochorismatase family; Region: Isochorismatase; pfam00857 554290006531 active site 554290006532 conserved cis-peptide bond; other site 554290006533 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 554290006534 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 554290006535 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 554290006536 acyl-activating enzyme (AAE) consensus motif; other site 554290006537 active site 554290006538 AMP binding site [chemical binding]; other site 554290006539 substrate binding site [chemical binding]; other site 554290006540 isochorismate synthase EntC; Provisional; Region: PRK15016 554290006541 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 554290006542 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 554290006543 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 554290006544 siderophore binding site; other site 554290006545 enterobactin exporter EntS; Provisional; Region: PRK10489 554290006546 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 554290006547 putative substrate translocation pore; other site 554290006548 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 554290006549 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 554290006550 ABC-ATPase subunit interface; other site 554290006551 dimer interface [polypeptide binding]; other site 554290006552 putative PBP binding regions; other site 554290006553 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 554290006554 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 554290006555 ABC-ATPase subunit interface; other site 554290006556 dimer interface [polypeptide binding]; other site 554290006557 putative PBP binding regions; other site 554290006558 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 554290006559 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 554290006560 Walker A/P-loop; other site 554290006561 ATP binding site [chemical binding]; other site 554290006562 Q-loop/lid; other site 554290006563 ABC transporter signature motif; other site 554290006564 Walker B; other site 554290006565 D-loop; other site 554290006566 H-loop/switch region; other site 554290006567 LPS O-antigen length regulator; Provisional; Region: PRK10381 554290006568 Chain length determinant protein; Region: Wzz; pfam02706 554290006569 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 554290006570 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 554290006571 acyl-activating enzyme (AAE) consensus motif; other site 554290006572 AMP binding site [chemical binding]; other site 554290006573 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 554290006574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 554290006575 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 554290006576 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 554290006577 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 554290006578 outer membrane receptor FepA; Provisional; Region: PRK13524 554290006579 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 554290006580 N-terminal plug; other site 554290006581 ligand-binding site [chemical binding]; other site 554290006582 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 554290006583 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 554290006584 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 554290006585 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 554290006586 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 554290006587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290006588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 554290006589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290006590 hypothetical protein; Provisional; Region: PRK10250 554290006591 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 554290006592 dimer interface [polypeptide binding]; other site 554290006593 FMN binding site [chemical binding]; other site 554290006594 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 554290006595 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 554290006596 active site 554290006597 oxyanion hole [active] 554290006598 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 554290006599 catalytic triad [active] 554290006600 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 554290006601 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 554290006602 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290006603 phenylalanine transporter; Provisional; Region: PRK10249 554290006604 Spore germination protein; Region: Spore_permease; cl17796 554290006605 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 554290006606 Predicted membrane protein [Function unknown]; Region: COG3059 554290006607 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290006608 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 554290006609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290006610 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 554290006611 Cupin; Region: Cupin_6; pfam12852 554290006612 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 554290006613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290006614 similar to |38639713|ref|NP_943482.1| SilA [Klebsiella pneumoniae] 554290006615 sensor protein (pseudogene) 554290006616 Predicted membrane protein [Function unknown]; Region: COG2246 554290006617 GtrA-like protein; Region: GtrA; pfam04138 554290006618 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 554290006619 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 554290006620 Ligand binding site; other site 554290006621 Putative Catalytic site; other site 554290006622 DXD motif; other site 554290006624 similar to Salmonella typhimurium transposase 554290006627 fimbriae regulatory protein FimW; Provisional; Region: PRK15201 554290006628 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 554290006629 DNA binding residues [nucleotide binding] 554290006630 dimerization interface [polypeptide binding]; other site 554290006631 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 554290006632 transcriptional regulator FimZ; Provisional; Region: PRK09935 554290006633 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 554290006634 active site 554290006635 phosphorylation site [posttranslational modification] 554290006636 intermolecular recognition site; other site 554290006637 dimerization interface [polypeptide binding]; other site 554290006638 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 554290006639 DNA binding residues [nucleotide binding] 554290006640 dimerization interface [polypeptide binding]; other site 554290006641 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 554290006642 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 554290006643 outer membrane usher protein FimD; Provisional; Region: PRK15198 554290006644 PapC N-terminal domain; Region: PapC_N; pfam13954 554290006645 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290006646 PapC C-terminal domain; Region: PapC_C; pfam13953 554290006647 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 554290006648 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290006649 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290006650 fimbrial protein FimI; Provisional; Region: PRK15200 554290006651 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 554290006652 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 554290006653 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 554290006654 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 554290006655 homodimer interface [polypeptide binding]; other site 554290006656 NADP binding site [chemical binding]; other site 554290006657 substrate binding site [chemical binding]; other site 554290006658 ribosome-associated protein; Provisional; Region: PRK11507 554290006659 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 554290006660 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 554290006661 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 554290006662 active site 554290006663 HIGH motif; other site 554290006664 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 554290006665 KMSKS motif; other site 554290006666 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 554290006667 tRNA binding surface [nucleotide binding]; other site 554290006668 anticodon binding site; other site 554290006669 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 554290006670 substrate binding site [chemical binding]; other site 554290006671 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 554290006672 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 554290006673 putative active site [active] 554290006674 putative metal binding site [ion binding]; other site 554290006675 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 554290006676 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 554290006677 ATP-grasp domain; Region: ATP-grasp; pfam02222 554290006678 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 554290006679 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 554290006680 putative substrate binding site [chemical binding]; other site 554290006681 nucleotide binding site [chemical binding]; other site 554290006682 nucleotide binding site [chemical binding]; other site 554290006683 homodimer interface [polypeptide binding]; other site 554290006684 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 554290006685 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 554290006687 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 554290006688 allantoate amidohydrolase; Region: AllC; TIGR03176 554290006689 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 554290006690 active site 554290006691 metal binding site [ion binding]; metal-binding site 554290006692 dimer interface [polypeptide binding]; other site 554290006693 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 554290006694 Mif2/CENP-C like; Region: Mif2; pfam11699 554290006695 Cupin domain; Region: Cupin_2; pfam07883 554290006696 glycerate kinase II; Provisional; Region: PRK09932 554290006697 putative uracil/xanthine transporter; Provisional; Region: PRK11412 554290006698 allantoinase; Provisional; Region: PRK08044 554290006699 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 554290006700 active site 554290006702 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 554290006703 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290006704 putative substrate translocation pore; other site 554290006705 tartronate semialdehyde reductase; Provisional; Region: PRK15059 554290006706 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 554290006707 hydroxypyruvate isomerase; Provisional; Region: PRK09997 554290006708 glyoxylate carboligase; Provisional; Region: PRK11269 554290006709 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 554290006710 PYR/PP interface [polypeptide binding]; other site 554290006711 dimer interface [polypeptide binding]; other site 554290006712 TPP binding site [chemical binding]; other site 554290006713 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290006714 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 554290006715 TPP-binding site [chemical binding]; other site 554290006716 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 554290006717 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 554290006718 Bacterial transcriptional regulator; Region: IclR; pfam01614 554290006719 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 554290006720 ureidoglycolate hydrolase; Provisional; Region: PRK03606 554290006721 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 554290006722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290006723 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 554290006724 dimerization interface [polypeptide binding]; other site 554290006725 Predicted ATPase [General function prediction only]; Region: COG2603 554290006726 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 554290006727 active site residue [active] 554290006728 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 554290006729 dimer interface [polypeptide binding]; other site 554290006730 conserved gate region; other site 554290006731 ABC-ATPase subunit interface; other site 554290006732 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 554290006733 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 554290006734 Walker A/P-loop; other site 554290006735 ATP binding site [chemical binding]; other site 554290006736 Q-loop/lid; other site 554290006737 ABC transporter signature motif; other site 554290006738 Walker B; other site 554290006739 D-loop; other site 554290006740 H-loop/switch region; other site 554290006741 NIL domain; Region: NIL; pfam09383 554290006742 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 554290006743 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 554290006744 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290006745 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 554290006746 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 554290006747 FtsX-like permease family; Region: FtsX; pfam02687 554290006748 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 554290006749 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 554290006750 Walker A/P-loop; other site 554290006751 ATP binding site [chemical binding]; other site 554290006752 Q-loop/lid; other site 554290006753 ABC transporter signature motif; other site 554290006754 Walker B; other site 554290006755 D-loop; other site 554290006756 H-loop/switch region; other site 554290006757 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 554290006758 active site 554290006759 catalytic triad [active] 554290006760 oxyanion hole [active] 554290006761 switch loop; other site 554290006762 oxidoreductase; Provisional; Region: PRK08017 554290006763 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 554290006764 NADP binding site [chemical binding]; other site 554290006765 active site 554290006766 steroid binding site; other site 554290006767 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 554290006768 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 554290006769 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 554290006770 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 554290006771 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 554290006772 Walker A/P-loop; other site 554290006773 ATP binding site [chemical binding]; other site 554290006774 Q-loop/lid; other site 554290006775 ABC transporter signature motif; other site 554290006776 Walker B; other site 554290006777 D-loop; other site 554290006778 H-loop/switch region; other site 554290006780 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 554290006781 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 554290006782 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 554290006783 DNA binding residues [nucleotide binding] 554290006784 dimer interface [polypeptide binding]; other site 554290006785 copper binding site [ion binding]; other site 554290006786 copper exporting ATPase; Provisional; Region: copA; PRK10671 554290006787 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 554290006788 metal-binding site [ion binding] 554290006789 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 554290006790 metal-binding site [ion binding] 554290006791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 554290006792 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 554290006793 motif II; other site 554290006794 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 554290006795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 554290006796 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 554290006797 putative deacylase active site [active] 554290006798 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 554290006799 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 554290006800 active site 554290006801 metal binding site [ion binding]; metal-binding site 554290006802 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 554290006803 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 554290006804 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290006805 putative substrate translocation pore; other site 554290006806 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 554290006807 putative cation:proton antiport protein; Provisional; Region: PRK10669 554290006808 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 554290006809 TrkA-N domain; Region: TrkA_N; pfam02254 554290006810 inosine/guanosine kinase; Provisional; Region: PRK15074 554290006811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290006812 acetyl esterase; Provisional; Region: PRK10162 554290006813 ferrochelatase; Reviewed; Region: hemH; PRK00035 554290006814 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 554290006815 C-terminal domain interface [polypeptide binding]; other site 554290006816 active site 554290006817 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 554290006818 active site 554290006819 N-terminal domain interface [polypeptide binding]; other site 554290006820 adenylate kinase; Reviewed; Region: adk; PRK00279 554290006821 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 554290006822 AMP-binding site [chemical binding]; other site 554290006823 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 554290006824 heat shock protein 90; Provisional; Region: PRK05218 554290006825 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 554290006826 ATP binding site [chemical binding]; other site 554290006827 Mg2+ binding site [ion binding]; other site 554290006828 G-X-G motif; other site 554290006829 recombination protein RecR; Reviewed; Region: recR; PRK00076 554290006830 RecR protein; Region: RecR; pfam02132 554290006831 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 554290006832 putative active site [active] 554290006833 putative metal-binding site [ion binding]; other site 554290006834 tetramer interface [polypeptide binding]; other site 554290006835 hypothetical protein; Validated; Region: PRK00153 554290006836 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 554290006837 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 554290006838 Walker A motif; other site 554290006839 ATP binding site [chemical binding]; other site 554290006840 Walker B motif; other site 554290006841 DNA polymerase III subunit delta'; Validated; Region: PRK08485 554290006842 arginine finger; other site 554290006843 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 554290006844 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 554290006845 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 554290006846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290006847 active site 554290006848 hypothetical protein; Provisional; Region: PRK10527 554290006849 primosomal replication protein N''; Provisional; Region: PRK10093 554290006850 hypothetical protein; Provisional; Region: PRK11038 554290006851 Uncharacterized conserved protein [Function unknown]; Region: COG5464 554290006852 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 554290006853 hypothetical protein; Provisional; Region: PRK11281 554290006854 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 554290006855 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 554290006856 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290006857 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 554290006858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290006859 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 554290006860 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 554290006861 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290006862 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 554290006863 Protein export membrane protein; Region: SecD_SecF; cl14618 554290006864 Protein export membrane protein; Region: SecD_SecF; cl14618 554290006865 Hha toxicity attenuator; Provisional; Region: PRK10667 554290006866 gene expression modulator; Provisional; Region: PRK10945 554290006867 maltose O-acetyltransferase; Provisional; Region: PRK10092 554290006868 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 554290006869 active site 554290006870 substrate binding site [chemical binding]; other site 554290006871 trimer interface [polypeptide binding]; other site 554290006872 CoA binding site [chemical binding]; other site 554290006873 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 554290006874 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 554290006875 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 554290006876 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 554290006877 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 554290006878 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 554290006879 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 554290006880 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 554290006881 DNA binding site [nucleotide binding] 554290006882 active site 554290006883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 554290006884 acyl-CoA thioesterase II; Provisional; Region: PRK10526 554290006885 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 554290006886 active site 554290006887 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 554290006888 catalytic triad [active] 554290006889 dimer interface [polypeptide binding]; other site 554290006890 ammonium transporter; Provisional; Region: PRK10666 554290006891 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 554290006892 Nitrogen regulatory protein P-II; Region: P-II; smart00938 554290006893 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 554290006894 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290006895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290006896 Walker A/P-loop; other site 554290006897 ATP binding site [chemical binding]; other site 554290006898 Q-loop/lid; other site 554290006899 ABC transporter signature motif; other site 554290006900 Walker B; other site 554290006901 D-loop; other site 554290006902 H-loop/switch region; other site 554290006903 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 554290006904 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290006905 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290006906 Walker A/P-loop; other site 554290006907 ATP binding site [chemical binding]; other site 554290006908 Q-loop/lid; other site 554290006909 ABC transporter signature motif; other site 554290006910 Walker B; other site 554290006911 D-loop; other site 554290006912 H-loop/switch region; other site 554290006913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 554290006914 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 554290006915 putative DNA binding site [nucleotide binding]; other site 554290006916 putative Zn2+ binding site [ion binding]; other site 554290006917 AsnC family; Region: AsnC_trans_reg; pfam01037 554290006918 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 554290006919 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 554290006920 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290006921 catalytic residue [active] 554290006922 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 554290006923 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 554290006924 active site 554290006925 motif I; other site 554290006926 motif II; other site 554290006927 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 554290006928 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 554290006929 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 554290006930 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 554290006931 Ligand Binding Site [chemical binding]; other site 554290006932 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 554290006933 active site 554290006934 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 554290006935 periplasmic folding chaperone; Provisional; Region: PRK10788 554290006936 SurA N-terminal domain; Region: SurA_N_3; cl07813 554290006937 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 554290006938 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 554290006939 IHF dimer interface [polypeptide binding]; other site 554290006940 IHF - DNA interface [nucleotide binding]; other site 554290006941 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 554290006942 Found in ATP-dependent protease La (LON); Region: LON; smart00464 554290006943 Found in ATP-dependent protease La (LON); Region: LON; smart00464 554290006944 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 554290006945 Walker A motif; other site 554290006946 ATP binding site [chemical binding]; other site 554290006947 Walker B motif; other site 554290006948 arginine finger; other site 554290006949 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 554290006950 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 554290006951 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 554290006952 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 554290006953 Walker A motif; other site 554290006954 ATP binding site [chemical binding]; other site 554290006955 Walker B motif; other site 554290006956 Iron permease FTR1 family; Region: FTR1; cl00475 554290006957 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 554290006958 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 554290006959 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 554290006960 oligomer interface [polypeptide binding]; other site 554290006961 active site residues [active] 554290006962 trigger factor; Provisional; Region: tig; PRK01490 554290006963 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 554290006964 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 554290006965 transcriptional regulator BolA; Provisional; Region: PRK11628 554290006966 hypothetical protein; Provisional; Region: PRK11627 554290006967 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 554290006968 muropeptide transporter; Reviewed; Region: ampG; PRK11902 554290006969 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 554290006970 putative substrate translocation pore; other site 554290006971 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 554290006972 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 554290006973 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 554290006974 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 554290006975 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 554290006976 D-pathway; other site 554290006977 Putative ubiquinol binding site [chemical binding]; other site 554290006978 Low-spin heme (heme b) binding site [chemical binding]; other site 554290006979 Putative water exit pathway; other site 554290006980 Binuclear center (heme o3/CuB) [ion binding]; other site 554290006981 K-pathway; other site 554290006982 Putative proton exit pathway; other site 554290006983 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 554290006984 Subunit I/III interface [polypeptide binding]; other site 554290006985 Subunit III/IV interface [polypeptide binding]; other site 554290006986 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 554290006987 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 554290006988 UbiA prenyltransferase family; Region: UbiA; pfam01040 554290006989 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 554290006990 Sel1-like repeats; Region: SEL1; smart00671 554290006991 Sel1-like repeats; Region: SEL1; smart00671 554290006992 Sel1-like repeats; Region: SEL1; smart00671 554290006993 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 554290006994 Sel1 repeat; Region: Sel1; pfam08238 554290006995 Sel1-like repeats; Region: SEL1; smart00671 554290006996 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 554290006997 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 554290006998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290006999 putative substrate translocation pore; other site 554290007000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 554290007001 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 554290007002 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 554290007003 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 554290007004 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 554290007005 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 554290007006 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 554290007007 conserved cys residue [active] 554290007008 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 554290007009 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 554290007010 motif II; other site 554290007011 2-aminoethylphosphonate--pyruvate transaminase; Region: transamin_PhnW; TIGR02326 554290007012 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290007013 catalytic residue [active] 554290007014 transcriptional regulator protein; Region: phnR; TIGR03337 554290007015 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290007016 DNA-binding site [nucleotide binding]; DNA binding site 554290007017 UTRA domain; Region: UTRA; pfam07702 554290007018 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 554290007019 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 554290007020 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 554290007021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007022 Walker A/P-loop; other site 554290007023 ATP binding site [chemical binding]; other site 554290007024 Q-loop/lid; other site 554290007025 ABC transporter signature motif; other site 554290007026 Walker B; other site 554290007027 D-loop; other site 554290007028 H-loop/switch region; other site 554290007029 TOBE domain; Region: TOBE_2; pfam08402 554290007030 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 554290007031 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 554290007032 dimer interface [polypeptide binding]; other site 554290007033 conserved gate region; other site 554290007034 putative PBP binding loops; other site 554290007035 ABC-ATPase subunit interface; other site 554290007036 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 554290007037 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 554290007038 dimer interface [polypeptide binding]; other site 554290007039 conserved gate region; other site 554290007040 putative PBP binding loops; other site 554290007041 ABC-ATPase subunit interface; other site 554290007042 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 554290007043 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 554290007044 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 554290007045 Ligand Binding Site [chemical binding]; other site 554290007046 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 554290007047 active site residue [active] 554290007048 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 554290007049 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 554290007050 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 554290007051 substrate binding pocket [chemical binding]; other site 554290007052 chain length determination region; other site 554290007053 substrate-Mg2+ binding site; other site 554290007054 catalytic residues [active] 554290007055 aspartate-rich region 1; other site 554290007056 active site lid residues [active] 554290007057 aspartate-rich region 2; other site 554290007058 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 554290007059 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 554290007060 TPP-binding site; other site 554290007061 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 554290007062 PYR/PP interface [polypeptide binding]; other site 554290007063 dimer interface [polypeptide binding]; other site 554290007064 TPP binding site [chemical binding]; other site 554290007065 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 554290007066 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 554290007067 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290007068 active site 554290007069 catalytic tetrad [active] 554290007070 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 554290007071 tetramer interfaces [polypeptide binding]; other site 554290007072 binuclear metal-binding site [ion binding]; other site 554290007073 thiamine monophosphate kinase; Provisional; Region: PRK05731 554290007074 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 554290007075 ATP binding site [chemical binding]; other site 554290007076 dimerization interface [polypeptide binding]; other site 554290007077 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 554290007078 putative RNA binding site [nucleotide binding]; other site 554290007079 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 554290007080 homopentamer interface [polypeptide binding]; other site 554290007081 active site 554290007082 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 554290007083 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 554290007084 catalytic motif [active] 554290007085 Zn binding site [ion binding]; other site 554290007086 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 554290007087 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 554290007088 ATP cone domain; Region: ATP-cone; pfam03477 554290007089 hypothetical protein; Provisional; Region: PRK11530 554290007090 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 554290007091 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 554290007092 active site 554290007093 Predicted transcriptional regulator [Transcription]; Region: COG2378 554290007094 HTH domain; Region: HTH_11; pfam08279 554290007095 WYL domain; Region: WYL; pfam13280 554290007096 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 554290007097 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 554290007098 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 554290007099 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 554290007100 Protein export membrane protein; Region: SecD_SecF; pfam02355 554290007101 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 554290007102 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 554290007103 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 554290007104 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 554290007105 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 554290007106 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 554290007107 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 554290007108 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 554290007109 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 554290007110 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 554290007111 peroxidase; Provisional; Region: PRK15000 554290007112 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 554290007113 dimer interface [polypeptide binding]; other site 554290007114 decamer (pentamer of dimers) interface [polypeptide binding]; other site 554290007115 catalytic triad [active] 554290007116 peroxidatic and resolving cysteines [active] 554290007117 maltodextrin glucosidase; Provisional; Region: PRK10785 554290007118 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 554290007119 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 554290007120 active site 554290007121 homodimer interface [polypeptide binding]; other site 554290007122 catalytic site [active] 554290007123 putative proline-specific permease; Provisional; Region: proY; PRK10580 554290007124 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 554290007125 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 554290007126 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 554290007127 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 554290007128 putative active site [active] 554290007129 heme pocket [chemical binding]; other site 554290007130 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 554290007131 dimer interface [polypeptide binding]; other site 554290007132 phosphorylation site [posttranslational modification] 554290007133 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 554290007134 ATP binding site [chemical binding]; other site 554290007135 Mg2+ binding site [ion binding]; other site 554290007136 G-X-G motif; other site 554290007137 transcriptional regulator PhoB; Provisional; Region: PRK10161 554290007138 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 554290007139 active site 554290007140 phosphorylation site [posttranslational modification] 554290007141 intermolecular recognition site; other site 554290007142 dimerization interface [polypeptide binding]; other site 554290007143 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 554290007144 DNA binding site [nucleotide binding] 554290007145 exonuclease subunit SbcD; Provisional; Region: PRK10966 554290007146 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 554290007147 active site 554290007148 metal binding site [ion binding]; metal-binding site 554290007149 DNA binding site [nucleotide binding] 554290007150 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 554290007151 exonuclease subunit SbcC; Provisional; Region: PRK10246 554290007152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007153 Walker A/P-loop; other site 554290007154 ATP binding site [chemical binding]; other site 554290007155 Q-loop/lid; other site 554290007156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007157 ABC transporter signature motif; other site 554290007158 Walker B; other site 554290007159 D-loop; other site 554290007160 H-loop/switch region; other site 554290007161 MFS transport protein AraJ; Provisional; Region: PRK10091 554290007162 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 554290007163 putative substrate translocation pore; other site 554290007164 fructokinase; Reviewed; Region: PRK09557 554290007165 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290007166 nucleotide binding site [chemical binding]; other site 554290007167 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 554290007168 hypothetical protein; Provisional; Region: PRK10579 554290007169 hypothetical protein; Provisional; Region: PRK10481 554290007170 hypothetical protein; Provisional; Region: PRK10380 554290007171 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 554290007172 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 554290007173 ADP binding site [chemical binding]; other site 554290007174 magnesium binding site [ion binding]; other site 554290007175 putative shikimate binding site; other site 554290007176 hypothetical protein; Validated; Region: PRK00124 554290007177 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 554290007178 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 554290007179 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 554290007180 MASE2 domain; Region: MASE2; pfam05230 554290007181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290007182 metal binding site [ion binding]; metal-binding site 554290007183 active site 554290007184 I-site; other site 554290007185 hypothetical protein; Provisional; Region: PRK11505 554290007186 psiF repeat; Region: PsiF_repeat; pfam07769 554290007187 psiF repeat; Region: PsiF_repeat; pfam07769 554290007188 anti-RssB factor; Provisional; Region: PRK10244 554290007189 drug efflux system protein MdtG; Provisional; Region: PRK09874 554290007190 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 554290007191 putative substrate translocation pore; other site 554290007192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 554290007193 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 554290007195 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 554290007196 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 554290007197 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 554290007198 microcin B17 transporter; Reviewed; Region: PRK11098 554290007199 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 554290007200 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 554290007201 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 554290007202 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 554290007203 ligand binding site [chemical binding]; other site 554290007204 flexible hinge region; other site 554290007205 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 554290007206 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 554290007207 Autotransporter beta-domain; Region: Autotransporter; pfam03797 554290007208 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 554290007209 dimer interface [polypeptide binding]; other site 554290007210 active site 554290007211 Schiff base residues; other site 554290007212 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 554290007213 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 554290007214 acyl-activating enzyme (AAE) consensus motif; other site 554290007215 AMP binding site [chemical binding]; other site 554290007216 active site 554290007217 CoA binding site [chemical binding]; other site 554290007218 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 554290007219 2-methylcitrate dehydratase; Region: prpD; TIGR02330 554290007220 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 554290007221 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 554290007222 dimer interface [polypeptide binding]; other site 554290007223 active site 554290007224 citrylCoA binding site [chemical binding]; other site 554290007225 oxalacetate/citrate binding site [chemical binding]; other site 554290007226 coenzyme A binding site [chemical binding]; other site 554290007227 catalytic triad [active] 554290007228 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 554290007229 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 554290007230 tetramer interface [polypeptide binding]; other site 554290007231 active site 554290007232 Mg2+/Mn2+ binding site [ion binding]; other site 554290007233 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 554290007234 Propionate catabolism activator; Region: PrpR_N; pfam06506 554290007235 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 554290007236 Walker A motif; other site 554290007237 ATP binding site [chemical binding]; other site 554290007238 Walker B motif; other site 554290007239 arginine finger; other site 554290007240 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290007241 hypothetical protein; Provisional; Region: PRK09929 554290007242 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 554290007243 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 554290007244 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 554290007245 N-terminal plug; other site 554290007246 ligand-binding site [chemical binding]; other site 554290007247 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290007249 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 554290007250 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 554290007251 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 554290007252 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 554290007253 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 554290007254 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 554290007255 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 554290007256 VRR-NUC domain; Region: VRR_NUC; pfam08774 554290007257 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 554290007258 DNA methylase; Region: N6_N4_Mtase; cl17433 554290007259 DNA methylase; Region: N6_N4_Mtase; pfam01555 554290007260 putative sialic acid transporter; Region: 2A0112; TIGR00891 554290007261 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 554290007262 putative substrate translocation pore; other site 554290007264 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 554290007265 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 554290007266 DNA binding residues [nucleotide binding] 554290007267 dimerization interface [polypeptide binding]; other site 554290007268 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 554290007269 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 554290007270 DNA binding site [nucleotide binding] 554290007271 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 554290007272 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 554290007273 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 554290007274 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 554290007275 fimbrial chaperone protein StbB; Provisional; Region: PRK15249 554290007276 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290007277 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290007278 fimbrial outer membrane usher protein StbC; Provisional; Region: PRK15248 554290007279 PapC N-terminal domain; Region: PapC_N; pfam13954 554290007280 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290007281 PapC C-terminal domain; Region: PapC_C; pfam13953 554290007282 putative fimbrial usher protein StbD; Provisional; Region: PRK15247 554290007283 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 554290007284 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290007285 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290007286 Predicted membrane protein [Function unknown]; Region: COG2246 554290007287 GtrA-like protein; Region: GtrA; pfam04138 554290007288 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 554290007289 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 554290007290 Ligand binding site; other site 554290007291 Putative Catalytic site; other site 554290007292 DXD motif; other site 554290007293 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 554290007294 Head binding; Region: Head_binding; pfam09008 554290007295 Salmonella phage P22 tail-spike; Region: PhageP22-tail; pfam09251 554290007296 Mnt; Region: mnt; PHA01513 554290007297 Arc-like DNA binding domain; Region: Arc; pfam03869 554290007298 Regulatory protein Mnt; Region: Repressor_Mnt; pfam11423 554290007299 head assembly protein; Region: PHA00771 554290007300 Phage stabilisation protein; Region: Phage_stabilise; pfam11134 554290007301 P22 tail accessory factor; Region: P22_Tail-4; pfam11650 554290007302 coat protein; Region: PHA01511 554290007303 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 554290007304 Bacteriophage, scaffolding protein; Region: Phage-scaffold; pfam09306 554290007305 Terminase-like family; Region: Terminase_6; pfam03237 554290007306 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 554290007307 Phage terminase large subunit; Region: Terminase_3; cl12054 554290007308 KilA-N domain; Region: KilA-N; pfam04383 554290007309 ORF11CD3 domain; Region: ORF11CD3; pfam10549 554290007310 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 554290007311 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 554290007312 catalytic residues [active] 554290007313 phage holin, lambda family; Region: holin_lambda; TIGR01594 554290007314 Antitermination protein; Region: Antiterm; pfam03589 554290007315 Antitermination protein; Region: Antiterm; pfam03589 554290007316 Phage NinH protein; Region: Phage_NinH; pfam06322 554290007317 Endodeoxyribonuclease RusA; Region: RusA; cl01885 554290007318 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 554290007319 NinF protein; Region: NinF; pfam05810 554290007320 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 554290007321 NINE Protein; Region: NinE; pfam05322 554290007322 NinB protein; Region: NinB; pfam05772 554290007323 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 554290007324 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 554290007325 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 554290007326 Walker A motif; other site 554290007327 ATP binding site [chemical binding]; other site 554290007328 Walker B motif; other site 554290007329 Protein of unknown function (DUF2740); Region: DUF2740; pfam10872 554290007330 Bacteriophage CII protein; Region: Phage_CII; pfam05269 554290007331 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 554290007332 non-specific DNA binding site [nucleotide binding]; other site 554290007333 Predicted transcriptional regulator [Transcription]; Region: COG2932 554290007334 salt bridge; other site 554290007335 sequence-specific DNA binding site [nucleotide binding]; other site 554290007336 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 554290007337 Catalytic site [active] 554290007338 Superinfection exclusion protein B; Region: SieB; pfam14163 554290007339 Antirestriction protein Ral; Region: Ral; pfam11058 554290007340 Lambda Phage CIII; Region: Lambda_CIII; pfam02061 554290007341 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 554290007342 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 554290007343 Protein of unknown function (DUF2856); Region: DUF2856; pfam11043 554290007344 Protein of unknown function (DUF2737); Region: DUF2737; pfam10930 554290007345 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 554290007346 Protein of unknown function (DUF550); Region: DUF550; pfam04447 554290007347 The ASCH domain adopts a beta-barrel fold similar to that of the PUA domain; Region: ASCH; smart01022 554290007348 Helix-turn-helix domain; Region: HTH_17; pfam12728 554290007349 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 554290007350 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 554290007351 Int/Topo IB signature motif; other site 554290007352 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 554290007353 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 554290007354 putative catalytic cysteine [active] 554290007355 gamma-glutamyl kinase; Provisional; Region: PRK05429 554290007356 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 554290007357 nucleotide binding site [chemical binding]; other site 554290007358 homotetrameric interface [polypeptide binding]; other site 554290007359 putative phosphate binding site [ion binding]; other site 554290007360 putative allosteric binding site; other site 554290007361 PUA domain; Region: PUA; pfam01472 554290007362 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 554290007363 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 554290007364 trimer interface [polypeptide binding]; other site 554290007365 eyelet of channel; other site 554290007366 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 554290007367 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 554290007368 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290007369 active site 554290007370 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 554290007371 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 554290007372 metal binding site [ion binding]; metal-binding site 554290007373 dimer interface [polypeptide binding]; other site 554290007374 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 554290007375 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 554290007376 hypothetical protein; Reviewed; Region: PRK09588 554290007377 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 554290007378 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 554290007379 active site 554290007380 DNA polymerase IV; Validated; Region: PRK02406 554290007381 DNA binding site [nucleotide binding] 554290007382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 554290007383 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 554290007384 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 554290007385 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 554290007386 putative active site [active] 554290007387 putative dimer interface [polypeptide binding]; other site 554290007388 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 554290007389 dimer interface [polypeptide binding]; other site 554290007390 active site 554290007391 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 554290007392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 554290007393 active site 554290007394 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 554290007395 C-N hydrolase family amidase; Provisional; Region: PRK10438 554290007396 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 554290007397 putative active site [active] 554290007398 catalytic triad [active] 554290007399 dimer interface [polypeptide binding]; other site 554290007400 multimer interface [polypeptide binding]; other site 554290007401 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 554290007402 dimer interface [polypeptide binding]; other site 554290007403 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 554290007405 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 554290007406 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 554290007407 AsnC family; Region: AsnC_trans_reg; pfam01037 554290007408 putative fimbrial protein TcfD; Provisional; Region: PRK15311 554290007409 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 554290007410 putative fimbrial subunit TcfB; Provisional; Region: PRK15309 554290007411 putative fimbrial protein TcfA; Provisional; Region: PRK15308 554290007412 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 554290007413 Transposase; Region: HTH_Tnp_1; cl17663 554290007414 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290007415 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290007416 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 554290007417 dimerization interface [polypeptide binding]; other site 554290007419 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 554290007420 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 554290007421 putative active site [active] 554290007422 putative metal binding site [ion binding]; other site 554290007424 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223 554290007425 PapC N-terminal domain; Region: PapC_N; pfam13954 554290007426 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290007427 PapC C-terminal domain; Region: PapC_C; pfam13953 554290007428 pili assembly chaperone protein SafB; Provisional; Region: PRK15224 554290007429 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290007430 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290007431 similar to Q06WE4_SALNE (Salmonella enterica serovar Newport) 554290007432 Saf-pilin pilus formation protein SafA; Provisional; Region: PRK15221 554290007433 similar to |5420068|emb|CAB46580.1| IS1400 transposase B [Yersinia enterocolitica] 554290007434 similar to |1915951|emb|CAB06027.1| transposase ORFA [Salmonella enteritidis] 554290007435 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 554290007437 PAAR motif; Region: PAAR_motif; pfam05488 554290007438 RHS Repeat; Region: RHS_repeat; cl11982 554290007439 RHS Repeat; Region: RHS_repeat; cl11982 554290007440 RHS Repeat; Region: RHS_repeat; cl11982 554290007441 RHS Repeat; Region: RHS_repeat; pfam05593 554290007442 RHS Repeat; Region: RHS_repeat; pfam05593 554290007443 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 554290007444 RHS Repeat; Region: RHS_repeat; pfam05593 554290007445 RHS Repeat; Region: RHS_repeat; pfam05593 554290007446 RHS Repeat; Region: RHS_repeat; pfam05593 554290007447 RHS Repeat; Region: RHS_repeat; pfam05593 554290007448 RHS Repeat; Region: RHS_repeat; pfam05593 554290007449 RHS Repeat; Region: RHS_repeat; cl11982 554290007450 RHS Repeat; Region: RHS_repeat; cl11982 554290007451 RHS protein; Region: RHS; pfam03527 554290007452 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 554290007453 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 554290007454 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 554290007455 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 554290007456 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 554290007457 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 554290007459 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 554290007460 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 554290007461 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 554290007462 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 554290007463 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 554290007464 hypothetical protein; Provisional; Region: PRK08126 554290007465 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 554290007466 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 554290007467 ligand binding site [chemical binding]; other site 554290007468 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 554290007469 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 554290007470 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 554290007471 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 554290007472 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 554290007473 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 554290007474 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 554290007475 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 554290007476 Protein of unknown function (DUF877); Region: DUF877; pfam05943 554290007477 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 554290007478 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 554290007479 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 554290007480 Walker A motif; other site 554290007481 ATP binding site [chemical binding]; other site 554290007482 Walker B motif; other site 554290007483 arginine finger; other site 554290007484 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 554290007485 Walker A motif; other site 554290007486 ATP binding site [chemical binding]; other site 554290007487 Walker B motif; other site 554290007488 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 554290007490 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 554290007491 ImpE protein; Region: ImpE; pfam07024 554290007492 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 554290007493 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 554290007494 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 554290007495 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 554290007496 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 554290007497 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 554290007498 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 554290007499 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 554290007500 active site 554290007501 catalytic site [active] 554290007502 substrate binding site [chemical binding]; other site 554290007503 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 554290007504 RNA/DNA hybrid binding site [nucleotide binding]; other site 554290007505 active site 554290007506 Methyltransferase domain; Region: Methyltransf_23; pfam13489 554290007507 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 554290007508 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 554290007509 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 554290007510 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 554290007511 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290007512 catalytic residue [active] 554290007513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290007514 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290007515 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 554290007516 S-adenosylmethionine binding site [chemical binding]; other site 554290007517 hypothetical protein; Provisional; Region: PRK05421 554290007518 putative catalytic site [active] 554290007519 putative metal binding site [ion binding]; other site 554290007520 putative phosphate binding site [ion binding]; other site 554290007521 putative catalytic site [active] 554290007522 putative phosphate binding site [ion binding]; other site 554290007523 putative metal binding site [ion binding]; other site 554290007524 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 554290007525 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 554290007526 putative substrate translocation pore; other site 554290007527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290007528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290007529 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 554290007530 putative effector binding pocket; other site 554290007531 dimerization interface [polypeptide binding]; other site 554290007532 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 554290007533 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290007534 active site 554290007535 catalytic tetrad [active] 554290007536 protein disaggregation chaperone; Provisional; Region: PRK10865 554290007537 Clp amino terminal domain; Region: Clp_N; pfam02861 554290007538 Clp amino terminal domain; Region: Clp_N; pfam02861 554290007539 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 554290007540 Walker A motif; other site 554290007541 ATP binding site [chemical binding]; other site 554290007542 Walker B motif; other site 554290007543 arginine finger; other site 554290007544 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 554290007545 Walker A motif; other site 554290007546 ATP binding site [chemical binding]; other site 554290007547 Walker B motif; other site 554290007548 arginine finger; other site 554290007549 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 554290007550 hypothetical protein; Provisional; Region: PRK10723 554290007551 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 554290007552 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 554290007553 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 554290007554 RNA binding surface [nucleotide binding]; other site 554290007555 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 554290007556 active site 554290007557 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 554290007558 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 554290007559 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 554290007560 30S subunit binding site; other site 554290007561 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 554290007562 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 554290007563 Prephenate dehydratase; Region: PDT; pfam00800 554290007564 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 554290007565 putative L-Phe binding site [chemical binding]; other site 554290007566 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 554290007567 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 554290007568 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 554290007569 prephenate dehydrogenase; Validated; Region: PRK08507 554290007570 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 554290007571 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 554290007572 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 554290007573 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 554290007574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290007575 metal binding site [ion binding]; metal-binding site 554290007576 active site 554290007577 I-site; other site 554290007578 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 554290007579 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 554290007580 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 554290007581 RimM N-terminal domain; Region: RimM; pfam01782 554290007582 PRC-barrel domain; Region: PRC; pfam05239 554290007583 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 554290007584 signal recognition particle protein; Provisional; Region: PRK10867 554290007585 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 554290007586 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 554290007587 P loop; other site 554290007588 GTP binding site [chemical binding]; other site 554290007589 Signal peptide binding domain; Region: SRP_SPB; pfam02978 554290007590 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 554290007591 hypothetical protein; Provisional; Region: PRK11573 554290007592 Domain of unknown function DUF21; Region: DUF21; pfam01595 554290007593 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 554290007594 Transporter associated domain; Region: CorC_HlyC; smart01091 554290007595 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 554290007596 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 554290007597 dimer interface [polypeptide binding]; other site 554290007598 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 554290007599 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 554290007600 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 554290007601 recombination and repair protein; Provisional; Region: PRK10869 554290007602 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 554290007603 Walker A/P-loop; other site 554290007604 ATP binding site [chemical binding]; other site 554290007605 Q-loop/lid; other site 554290007606 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 554290007607 ABC transporter signature motif; other site 554290007608 Walker B; other site 554290007609 D-loop; other site 554290007610 H-loop/switch region; other site 554290007611 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 554290007612 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 554290007613 hypothetical protein; Validated; Region: PRK01777 554290007614 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 554290007615 putative coenzyme Q binding site [chemical binding]; other site 554290007616 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 554290007617 SmpB-tmRNA interface; other site 554290007618 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007619 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007620 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007621 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007622 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007623 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007624 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007625 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007626 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007627 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290007628 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007629 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007630 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290007631 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007632 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290007633 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 554290007634 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 554290007635 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 554290007636 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290007637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007638 Walker A/P-loop; other site 554290007639 ATP binding site [chemical binding]; other site 554290007640 Q-loop/lid; other site 554290007641 ABC transporter signature motif; other site 554290007642 Walker B; other site 554290007643 D-loop; other site 554290007644 H-loop/switch region; other site 554290007645 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 554290007646 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290007647 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 554290007648 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 554290007649 tail protein; Provisional; Region: D; PHA02561 554290007650 Phage protein U [General function prediction only]; Region: COG3499 554290007651 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 554290007652 membrane protein P6; Region: PHA01399 554290007653 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 554290007654 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 554290007655 major tail tube protein; Provisional; Region: FII; PHA02600 554290007656 major tail sheath protein; Provisional; Region: FI; PHA02560 554290007657 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 554290007658 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 554290007659 DNA-binding interface [nucleotide binding]; DNA binding site 554290007660 type III secretion protein SopE; Provisional; Region: PRK15279 554290007661 Salmonella type III secretion SopE effector N-terminus; Region: SecIII_SopE_N; pfam05364 554290007662 SopE GEF domain; Region: SopE_GEF; pfam07487 554290007663 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 554290007664 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 554290007665 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 554290007666 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 554290007667 baseplate assembly protein; Provisional; Region: J; PHA02568 554290007668 baseplate wedge subunit; Provisional; Region: W; PHA02516 554290007669 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 554290007670 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 554290007671 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 554290007672 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 554290007673 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 554290007674 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 554290007675 catalytic residues [active] 554290007676 P2-like prophage tail protein X [General function prediction only]; Region: COG5004 554290007677 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 554290007678 terminase endonuclease subunit; Provisional; Region: M; PHA02537 554290007679 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 554290007680 capsid protein; Provisional; Region: N; PHA02538 554290007681 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 554290007682 terminase ATPase subunit; Provisional; Region: P; PHA02535 554290007683 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 554290007684 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 554290007685 portal vertex protein; Provisional; Region: Q; PHA02536 554290007686 Phage portal protein; Region: Phage_portal; pfam04860 554290007687 Hydrophobic surface binding protein A; Region: HsbA; pfam12296 554290007688 DinI-like family; Region: DinI; pfam06183 554290007689 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 554290007690 DNA adenine methylase (dam); Region: dam; TIGR00571 554290007691 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 554290007692 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 554290007693 active site 554290007694 catalytic site [active] 554290007695 substrate binding site [chemical binding]; other site 554290007696 DksA-like zinc finger domain containing protein; Region: PHA00080 554290007697 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 554290007698 Protein of unknown function (DUF2724); Region: DUF2724; pfam10893 554290007699 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 554290007700 Predicted transcriptional regulator [Transcription]; Region: COG2932 554290007701 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 554290007702 integrase; Provisional; Region: int; PHA02601 554290007703 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 554290007704 dimer interface [polypeptide binding]; other site 554290007705 active site 554290007706 catalytic residues [active] 554290007707 Int/Topo IB signature motif; other site 554290007708 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 554290007709 active site 554290007710 DNA binding site [nucleotide binding] 554290007711 Int/Topo IB signature motif; other site 554290007712 Mediator complex subunit MED14; Region: MED14; pfam08638 554290007713 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 554290007714 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 554290007715 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 554290007716 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 554290007717 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 554290007718 Baseplate J-like protein; Region: Baseplate_J; cl01294 554290007719 Baseplate J-like protein; Region: Baseplate_J; pfam04865 554290007720 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 554290007721 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 554290007722 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 554290007723 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 554290007724 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 554290007725 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 554290007726 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 554290007727 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 554290007728 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 554290007729 terminase ATPase subunit; Provisional; Region: P; PHA02535 554290007730 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 554290007731 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 554290007732 Phage-related protein [Function unknown]; Region: COG4695; cl01923 554290007733 Phage portal protein; Region: Phage_portal; pfam04860 554290007734 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 554290007735 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 554290007736 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 554290007737 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 554290007738 integrase; Provisional; Region: int; PHA02601 554290007739 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 554290007740 active site 554290007741 DNA binding site [nucleotide binding] 554290007742 Int/Topo IB signature motif; other site 554290007743 Repressor of phase-1 flagellin; Region: Flag1_repress; pfam03614 554290007744 flagellin; Validated; Region: PRK08026 554290007745 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 554290007746 Flagellin D3 domain; Region: Flagellin_D3; pfam08884 554290007747 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 554290007749 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 554290007750 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 554290007751 homodimer interface [polypeptide binding]; other site 554290007752 active site 554290007753 TDP-binding site; other site 554290007754 acceptor substrate-binding pocket; other site 554290007755 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290007756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007757 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 554290007758 Walker A/P-loop; other site 554290007759 ATP binding site [chemical binding]; other site 554290007760 Q-loop/lid; other site 554290007761 ABC transporter signature motif; other site 554290007762 Walker B; other site 554290007763 D-loop; other site 554290007764 H-loop/switch region; other site 554290007765 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 554290007766 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 554290007767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290007768 Walker A/P-loop; other site 554290007769 ATP binding site [chemical binding]; other site 554290007770 Q-loop/lid; other site 554290007771 ABC transporter signature motif; other site 554290007772 Walker B; other site 554290007773 D-loop; other site 554290007774 H-loop/switch region; other site 554290007775 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 554290007776 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 554290007777 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 554290007778 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 554290007779 outer membrane receptor FepA; Provisional; Region: PRK13528 554290007780 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 554290007781 N-terminal plug; other site 554290007782 ligand-binding site [chemical binding]; other site 554290007784 secreted effector protein PipB2; Provisional; Region: PRK15196 554290007785 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290007786 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290007787 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290007788 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290007789 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 554290007790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 554290007791 antimicrobial resistance protein Mig-14; Provisional; Region: PRK15312 554290007792 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 554290007793 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 554290007794 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 554290007795 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 554290007796 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 554290007797 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 554290007798 dimer interface [polypeptide binding]; other site 554290007799 phosphorylation site [posttranslational modification] 554290007800 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 554290007801 ATP binding site [chemical binding]; other site 554290007802 Mg2+ binding site [ion binding]; other site 554290007803 G-X-G motif; other site 554290007804 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 554290007805 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 554290007806 active site 554290007807 phosphorylation site [posttranslational modification] 554290007808 intermolecular recognition site; other site 554290007809 dimerization interface [polypeptide binding]; other site 554290007810 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 554290007811 DNA binding site [nucleotide binding] 554290007812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 554290007813 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 554290007814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 554290007815 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 554290007816 substrate binding pocket [chemical binding]; other site 554290007817 active site 554290007818 iron coordination sites [ion binding]; other site 554290007819 Predicted dehydrogenase [General function prediction only]; Region: COG0579 554290007820 hydroxyglutarate oxidase; Provisional; Region: PRK11728 554290007821 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 554290007822 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 554290007823 tetramerization interface [polypeptide binding]; other site 554290007824 NAD(P) binding site [chemical binding]; other site 554290007825 catalytic residues [active] 554290007826 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 554290007827 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 554290007828 inhibitor-cofactor binding pocket; inhibition site 554290007829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290007830 catalytic residue [active] 554290007831 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 554290007832 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 554290007833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290007834 DNA-binding site [nucleotide binding]; DNA binding site 554290007835 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 554290007836 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 554290007837 bacterial OsmY and nodulation domain; Region: BON; smart00749 554290007838 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290007839 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 554290007840 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 554290007841 dimerization interface [polypeptide binding]; other site 554290007842 putative DNA binding site [nucleotide binding]; other site 554290007843 Transcriptional regulators [Transcription]; Region: MarR; COG1846 554290007844 putative Zn2+ binding site [ion binding]; other site 554290007845 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 554290007846 active site residue [active] 554290007847 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 554290007848 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 554290007849 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 554290007850 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 554290007851 hypothetical protein; Provisional; Region: PRK10556 554290007852 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 554290007853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290007854 DNA-binding site [nucleotide binding]; DNA binding site 554290007855 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 554290007856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290007857 homodimer interface [polypeptide binding]; other site 554290007858 catalytic residue [active] 554290007859 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 554290007860 Uncharacterized conserved protein [Function unknown]; Region: COG2128 554290007861 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 554290007862 catalytic residues [active] 554290007863 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 554290007864 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 554290007865 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 554290007866 Class I ribonucleotide reductase; Region: RNR_I; cd01679 554290007867 active site 554290007868 dimer interface [polypeptide binding]; other site 554290007869 catalytic residues [active] 554290007870 effector binding site; other site 554290007871 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 554290007873 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 554290007874 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 554290007875 Walker A/P-loop; other site 554290007876 ATP binding site [chemical binding]; other site 554290007877 Q-loop/lid; other site 554290007878 ABC transporter signature motif; other site 554290007879 Walker B; other site 554290007880 D-loop; other site 554290007881 H-loop/switch region; other site 554290007882 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 554290007883 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 554290007884 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 554290007885 dimer interface [polypeptide binding]; other site 554290007886 conserved gate region; other site 554290007887 putative PBP binding loops; other site 554290007888 ABC-ATPase subunit interface; other site 554290007889 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 554290007890 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 554290007891 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 554290007892 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 554290007893 transcriptional repressor MprA; Provisional; Region: PRK10870 554290007894 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 554290007895 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 554290007896 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290007897 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290007898 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 554290007899 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 554290007900 putative substrate translocation pore; other site 554290007901 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 554290007903 S-ribosylhomocysteinase; Provisional; Region: PRK02260 554290007904 glutamate--cysteine ligase; Provisional; Region: PRK02107 554290007905 Predicted membrane protein [Function unknown]; Region: COG1238 554290007906 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 554290007907 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 554290007908 motif II; other site 554290007909 carbon storage regulator; Provisional; Region: PRK01712 554290007910 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 554290007911 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 554290007912 motif 1; other site 554290007913 active site 554290007914 motif 2; other site 554290007915 motif 3; other site 554290007916 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 554290007917 DHHA1 domain; Region: DHHA1; pfam02272 554290007918 recombination regulator RecX; Reviewed; Region: recX; PRK00117 554290007919 recombinase A; Provisional; Region: recA; PRK09354 554290007920 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 554290007921 hexamer interface [polypeptide binding]; other site 554290007922 Walker A motif; other site 554290007923 ATP binding site [chemical binding]; other site 554290007924 Walker B motif; other site 554290007925 hypothetical protein; Validated; Region: PRK03661 554290007926 Transglycosylase SLT domain; Region: SLT_2; pfam13406 554290007927 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 554290007928 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290007929 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 554290007930 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 554290007931 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 554290007932 Nucleoside recognition; Region: Gate; pfam07670 554290007933 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 554290007934 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 554290007935 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 554290007936 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 554290007937 putative NAD(P) binding site [chemical binding]; other site 554290007938 active site 554290007939 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 554290007940 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 554290007941 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290007942 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290007943 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 554290007944 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 554290007945 putative active site [active] 554290007946 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 554290007947 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 554290007948 GAF domain; Region: GAF; pfam01590 554290007949 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 554290007950 Walker A motif; other site 554290007951 ATP binding site [chemical binding]; other site 554290007952 Walker B motif; other site 554290007953 arginine finger; other site 554290007954 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 554290007955 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 554290007956 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 554290007957 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 554290007958 iron binding site [ion binding]; other site 554290007959 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 554290007960 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290007961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290007962 Acylphosphatase; Region: Acylphosphatase; pfam00708 554290007963 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 554290007964 HypF finger; Region: zf-HYPF; pfam07503 554290007965 HypF finger; Region: zf-HYPF; pfam07503 554290007966 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 554290007967 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 554290007968 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 554290007969 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 554290007970 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 554290007971 nickel binding site [ion binding]; other site 554290007972 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 554290007973 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 554290007974 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 554290007975 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 554290007976 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 554290007977 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 554290007978 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 554290007979 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 554290007980 NADH dehydrogenase; Region: NADHdh; cl00469 554290007981 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 554290007982 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 554290007983 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 554290007984 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 554290007985 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 554290007986 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 554290007987 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 554290007988 hydrogenase assembly chaperone; Provisional; Region: PRK10409 554290007989 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 554290007990 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 554290007991 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 554290007992 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 554290007993 dimerization interface [polypeptide binding]; other site 554290007994 ATP binding site [chemical binding]; other site 554290007995 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 554290007996 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 554290007997 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 554290007998 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 554290007999 Walker A motif; other site 554290008000 ATP binding site [chemical binding]; other site 554290008001 Walker B motif; other site 554290008002 arginine finger; other site 554290008003 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290008004 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 554290008005 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 554290008006 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 554290008007 metal binding site [ion binding]; metal-binding site 554290008008 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 554290008009 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 554290008010 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 554290008011 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 554290008012 ABC-ATPase subunit interface; other site 554290008013 dimer interface [polypeptide binding]; other site 554290008014 putative PBP binding regions; other site 554290008015 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 554290008016 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 554290008017 ABC-ATPase subunit interface; other site 554290008018 dimer interface [polypeptide binding]; other site 554290008019 putative PBP binding regions; other site 554290008020 transcriptional activator SprB; Provisional; Region: PRK15320 554290008021 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 554290008022 transcriptional regulator SirC; Provisional; Region: PRK15044 554290008023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290008024 putative type III secretion system effector protein OrgC; Provisional; Region: PRK15321 554290008025 invasion protein OrgB; Provisional; Region: PRK15322 554290008026 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 554290008027 invasion protein OrgA; Provisional; Region: PRK15323 554290008028 type III secretion system lipoprotein PrgK; Provisional; Region: PRK15324 554290008029 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 554290008030 type III secretion system needle complex protein PrgI; Provisional; Region: PRK15326 554290008031 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327 554290008032 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 554290008033 transcriptional regulator HilD; Provisional; Region: PRK15185 554290008034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290008035 invasion protein regulator; Provisional; Region: PRK12370 554290008036 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 554290008037 DNA binding site [nucleotide binding] 554290008038 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 554290008039 binding surface 554290008040 TPR motif; other site 554290008041 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 554290008042 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 554290008043 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290008044 catalytic residue [active] 554290008045 pathogenicity island 1 effector protein StpP; Provisional; Region: PRK15375 554290008046 SicP binding; Region: SicP-binding; pfam09119 554290008047 GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization; Region: ToxGAP; cd00219 554290008048 switch II binding region; other site 554290008049 Rac1 P-loop interaction site [polypeptide binding]; other site 554290008050 GTP binding residues [chemical binding]; other site 554290008051 switch I binding region; other site 554290008052 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cd00047 554290008053 active site 554290008054 chaperone protein SicP; Provisional; Region: PRK15329 554290008055 putative acyl carrier protein IacP; Validated; Region: PRK08172 554290008056 pathogenicity island 1 effector protein SipA; Provisional; Region: PRK15376 554290008057 cell invasion protein SipD; Provisional; Region: PRK15330 554290008058 pathogenicity island 1 effector protein SipC; Provisional; Region: PRK15373 554290008059 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 554290008060 chaperone protein SicA; Provisional; Region: PRK15331 554290008061 Tetratricopeptide repeat; Region: TPR_3; pfam07720 554290008062 Tetratricopeptide repeat; Region: TPR_3; pfam07720 554290008063 type III secretion system protein SpaS; Validated; Region: PRK08156 554290008064 type III secretion system protein SpaR; Provisional; Region: PRK15332 554290008065 type III secretion system protein SpaQ; Provisional; Region: PRK15333 554290008066 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 554290008067 type III secretion system protein SpaO; Validated; Region: PRK08158 554290008068 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 554290008069 antigen presentation protein SpaN; Provisional; Region: PRK15334 554290008070 Surface presentation of antigens protein; Region: SPAN; pfam02510 554290008071 Salmonella surface presentation of antigen gene type M protein; Region: SPAM; pfam02090 554290008072 ATP synthase SpaL; Validated; Region: PRK08149 554290008073 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 554290008074 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 554290008075 Walker A motif; other site 554290008076 ATP binding site [chemical binding]; other site 554290008077 Walker B motif; other site 554290008078 type III secretion system chaperone SpaK; Provisional; Region: PRK15336 554290008079 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 554290008080 type III secretion system protein InvA; Provisional; Region: PRK15337 554290008081 type III secretion system regulator InvE; Provisional; Region: PRK15338 554290008082 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 554290008083 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 554290008084 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 554290008085 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 554290008086 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 554290008087 transcriptional regulator InvF; Provisional; Region: PRK15340 554290008088 InvH outer membrane lipoprotein; Region: InvH; pfam04741 554290008089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 554290008092 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 554290008093 MutS domain I; Region: MutS_I; pfam01624 554290008094 MutS domain II; Region: MutS_II; pfam05188 554290008095 MutS domain III; Region: MutS_III; pfam05192 554290008096 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 554290008097 Walker A/P-loop; other site 554290008098 ATP binding site [chemical binding]; other site 554290008099 Q-loop/lid; other site 554290008100 ABC transporter signature motif; other site 554290008101 Walker B; other site 554290008102 D-loop; other site 554290008103 H-loop/switch region; other site 554290008104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 554290008105 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 554290008106 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290008107 putative substrate translocation pore; other site 554290008108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290008109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290008110 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 554290008111 putative effector binding pocket; other site 554290008112 dimerization interface [polypeptide binding]; other site 554290008113 GntP family permease; Region: GntP_permease; pfam02447 554290008114 fructuronate transporter; Provisional; Region: PRK10034; cl15264 554290008115 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 554290008116 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 554290008117 putative NAD(P) binding site [chemical binding]; other site 554290008118 active site 554290008119 putative substrate binding site [chemical binding]; other site 554290008120 hypothetical protein; Provisional; Region: PRK09989 554290008121 putative aldolase; Validated; Region: PRK08130 554290008122 intersubunit interface [polypeptide binding]; other site 554290008123 active site 554290008124 Zn2+ binding site [ion binding]; other site 554290008125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 554290008126 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 554290008127 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 554290008128 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290008129 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290008130 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290008131 Transcriptional regulators [Transcription]; Region: MarR; COG1846 554290008132 MarR family; Region: MarR; pfam01047 554290008133 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 554290008134 Flavoprotein; Region: Flavoprotein; pfam02441 554290008135 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 554290008136 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 554290008137 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 554290008138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 554290008139 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 554290008140 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 554290008141 DNA binding residues [nucleotide binding] 554290008142 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 554290008143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290008144 Peptidase family M23; Region: Peptidase_M23; pfam01551 554290008145 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 554290008146 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 554290008147 S-adenosylmethionine binding site [chemical binding]; other site 554290008148 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 554290008149 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 554290008150 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 554290008151 Permutation of conserved domain; other site 554290008152 active site 554290008153 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 554290008154 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 554290008155 homotrimer interaction site [polypeptide binding]; other site 554290008156 zinc binding site [ion binding]; other site 554290008157 CDP-binding sites; other site 554290008158 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 554290008159 substrate binding site; other site 554290008160 dimer interface; other site 554290008161 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 554290008162 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 554290008163 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 554290008164 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 554290008165 ligand-binding site [chemical binding]; other site 554290008166 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 554290008167 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 554290008168 CysD dimerization site [polypeptide binding]; other site 554290008169 G1 box; other site 554290008170 putative GEF interaction site [polypeptide binding]; other site 554290008171 GTP/Mg2+ binding site [chemical binding]; other site 554290008172 Switch I region; other site 554290008173 G2 box; other site 554290008174 G3 box; other site 554290008175 Switch II region; other site 554290008176 G4 box; other site 554290008177 G5 box; other site 554290008178 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 554290008179 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 554290008180 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 554290008181 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 554290008182 Active Sites [active] 554290008184 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 554290008185 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 554290008186 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 554290008187 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 554290008188 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 554290008189 CT1975-like protein; Region: Cas_CT1975; pfam09344 554290008190 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 554290008192 helicase Cas3; Provisional; Region: PRK09694 554290008193 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 554290008194 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 554290008195 pathogenicity island 1 effector protein SopD; Provisional; Region: PRK15379 554290008196 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 554290008197 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 554290008198 Active Sites [active] 554290008199 sulfite reductase subunit beta; Provisional; Region: PRK13504 554290008200 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 554290008201 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 554290008202 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 554290008203 Flavodoxin; Region: Flavodoxin_1; pfam00258 554290008204 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 554290008205 FAD binding pocket [chemical binding]; other site 554290008206 FAD binding motif [chemical binding]; other site 554290008207 catalytic residues [active] 554290008208 NAD binding pocket [chemical binding]; other site 554290008209 phosphate binding motif [ion binding]; other site 554290008210 beta-alpha-beta structure motif; other site 554290008211 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 554290008212 active site 554290008213 Similar to metal-dependent hydrolases of the beta-lactamase superfamily II. 554290008214 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 554290008215 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 554290008216 enolase; Provisional; Region: eno; PRK00077 554290008217 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 554290008218 dimer interface [polypeptide binding]; other site 554290008219 metal binding site [ion binding]; metal-binding site 554290008220 substrate binding pocket [chemical binding]; other site 554290008221 CTP synthetase; Validated; Region: pyrG; PRK05380 554290008222 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 554290008223 Catalytic site [active] 554290008224 active site 554290008225 UTP binding site [chemical binding]; other site 554290008226 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 554290008227 active site 554290008228 putative oxyanion hole; other site 554290008229 catalytic triad [active] 554290008230 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 554290008231 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 554290008232 homodimer interface [polypeptide binding]; other site 554290008233 metal binding site [ion binding]; metal-binding site 554290008234 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 554290008235 homodimer interface [polypeptide binding]; other site 554290008236 active site 554290008237 putative chemical substrate binding site [chemical binding]; other site 554290008238 metal binding site [ion binding]; metal-binding site 554290008239 fimbrial protein SteA; Provisional; Region: PRK15261 554290008240 putative fimbrial outer membrane usher protein SteB; Provisional; Region: PRK15273 554290008241 PapC N-terminal domain; Region: PapC_N; pfam13954 554290008242 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290008243 PapC C-terminal domain; Region: PapC_C; pfam13953 554290008244 putative periplasmic fimbrial chaperone protein SteC; Provisional; Region: PRK15274 554290008245 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290008246 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290008247 putative fimbrial protein SteD; Provisional; Region: PRK15275 554290008248 putative fimbrial subunit SteE; Provisional; Region: PRK15276 554290008249 fimbrial protein SteF; Provisional; Region: PRK15260 554290008250 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 554290008251 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 554290008252 HD domain; Region: HD_4; pfam13328 554290008253 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 554290008254 synthetase active site [active] 554290008255 NTP binding site [chemical binding]; other site 554290008256 metal binding site [ion binding]; metal-binding site 554290008257 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 554290008258 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 554290008259 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 554290008260 TRAM domain; Region: TRAM; pfam01938 554290008261 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 554290008262 S-adenosylmethionine binding site [chemical binding]; other site 554290008263 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 554290008264 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 554290008265 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 554290008266 dimerization interface [polypeptide binding]; other site 554290008267 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 554290008268 dimer interface [polypeptide binding]; other site 554290008269 phosphorylation site [posttranslational modification] 554290008270 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 554290008271 ATP binding site [chemical binding]; other site 554290008272 Mg2+ binding site [ion binding]; other site 554290008273 G-X-G motif; other site 554290008274 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 554290008275 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 554290008276 active site 554290008277 phosphorylation site [posttranslational modification] 554290008278 intermolecular recognition site; other site 554290008279 dimerization interface [polypeptide binding]; other site 554290008280 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 554290008281 putative binding surface; other site 554290008282 active site 554290008283 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 554290008284 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 554290008285 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 554290008286 active site 554290008287 tetramer interface [polypeptide binding]; other site 554290008289 flavodoxin; Provisional; Region: PRK08105 554290008290 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 554290008291 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 554290008292 probable active site [active] 554290008293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 554290008294 SecY interacting protein Syd; Provisional; Region: PRK04968 554290008295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 554290008296 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 554290008297 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 554290008298 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 554290008299 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 554290008300 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 554290008301 serine transporter; Region: stp; TIGR00814 554290008302 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 554290008303 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 554290008304 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 554290008305 flap endonuclease-like protein; Provisional; Region: PRK09482 554290008306 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 554290008307 active site 554290008308 metal binding site 1 [ion binding]; metal-binding site 554290008309 putative 5' ssDNA interaction site; other site 554290008310 metal binding site 3; metal-binding site 554290008311 metal binding site 2 [ion binding]; metal-binding site 554290008312 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 554290008313 putative DNA binding site [nucleotide binding]; other site 554290008314 putative metal binding site [ion binding]; other site 554290008315 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 554290008316 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 554290008317 dimer interface [polypeptide binding]; other site 554290008318 active site 554290008319 metal binding site [ion binding]; metal-binding site 554290008320 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 554290008321 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 554290008322 intersubunit interface [polypeptide binding]; other site 554290008323 active site 554290008324 Zn2+ binding site [ion binding]; other site 554290008325 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 554290008326 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 554290008327 putative substrate translocation pore; other site 554290008328 L-fucose isomerase; Provisional; Region: fucI; PRK10991 554290008329 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 554290008330 hexamer (dimer of trimers) interface [polypeptide binding]; other site 554290008331 trimer interface [polypeptide binding]; other site 554290008332 substrate binding site [chemical binding]; other site 554290008333 Mn binding site [ion binding]; other site 554290008334 L-fuculokinase; Provisional; Region: PRK10331 554290008335 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 554290008336 nucleotide binding site [chemical binding]; other site 554290008337 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 554290008338 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 554290008339 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290008340 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290008341 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 554290008342 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 554290008343 hypothetical protein; Provisional; Region: PRK10873 554290008344 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 554290008345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290008346 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 554290008347 dimerization interface [polypeptide binding]; other site 554290008348 substrate binding pocket [chemical binding]; other site 554290008349 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 554290008350 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 554290008351 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 554290008352 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290008353 catalytic residue [active] 554290008354 CsdA-binding activator; Provisional; Region: PRK15019 554290008355 Predicted permeases [General function prediction only]; Region: RarD; COG2962 554290008356 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 554290008357 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 554290008358 putative ATP binding site [chemical binding]; other site 554290008359 putative substrate interface [chemical binding]; other site 554290008360 murein transglycosylase A; Provisional; Region: mltA; PRK11162 554290008361 murein hydrolase B; Provisional; Region: PRK10760; cl17906 554290008362 MltA specific insert domain; Region: MltA; pfam03562 554290008363 3D domain; Region: 3D; pfam06725 554290008364 AMIN domain; Region: AMIN; pfam11741 554290008365 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 554290008366 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 554290008367 active site 554290008368 metal binding site [ion binding]; metal-binding site 554290008369 N-acetylglutamate synthase; Validated; Region: PRK05279 554290008370 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 554290008371 putative feedback inhibition sensing region; other site 554290008372 putative nucleotide binding site [chemical binding]; other site 554290008373 putative substrate binding site [chemical binding]; other site 554290008374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290008375 Coenzyme A binding pocket [chemical binding]; other site 554290008376 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 554290008377 AAA domain; Region: AAA_30; pfam13604 554290008378 Family description; Region: UvrD_C_2; pfam13538 554290008379 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 554290008380 protease3; Provisional; Region: PRK15101 554290008381 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 554290008382 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 554290008383 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 554290008384 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 554290008385 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 554290008386 hypothetical protein; Provisional; Region: PRK10332 554290008387 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 554290008388 hypothetical protein; Provisional; Region: PRK11521 554290008389 hypothetical protein; Provisional; Region: PRK10557 554290008390 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 554290008391 hypothetical protein; Provisional; Region: PRK10506 554290008392 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 554290008393 thymidylate synthase; Reviewed; Region: thyA; PRK01827 554290008394 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 554290008395 dimerization interface [polypeptide binding]; other site 554290008396 active site 554290008397 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 554290008398 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 554290008399 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 554290008400 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 554290008401 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 554290008402 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 554290008403 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 554290008404 putative active site [active] 554290008405 Ap4A binding site [chemical binding]; other site 554290008406 nudix motif; other site 554290008407 putative metal binding site [ion binding]; other site 554290008408 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 554290008409 putative DNA-binding cleft [nucleotide binding]; other site 554290008410 putative DNA clevage site; other site 554290008411 molecular lever; other site 554290008412 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 554290008413 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 554290008414 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 554290008415 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290008416 active site 554290008417 catalytic tetrad [active] 554290008418 lysophospholipid transporter LplT; Provisional; Region: PRK11195 554290008419 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 554290008420 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 554290008421 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 554290008422 putative acyl-acceptor binding pocket; other site 554290008423 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 554290008424 acyl-activating enzyme (AAE) consensus motif; other site 554290008425 putative AMP binding site [chemical binding]; other site 554290008426 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 554290008427 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290008428 DNA binding site [nucleotide binding] 554290008429 domain linker motif; other site 554290008430 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 554290008431 dimerization interface (closed form) [polypeptide binding]; other site 554290008432 ligand binding site [chemical binding]; other site 554290008433 Transcriptional regulators [Transcription]; Region: PurR; COG1609 554290008434 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290008435 DNA binding site [nucleotide binding] 554290008436 domain linker motif; other site 554290008437 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 554290008438 dimerization interface (closed form) [polypeptide binding]; other site 554290008439 ligand binding site [chemical binding]; other site 554290008440 diaminopimelate decarboxylase; Provisional; Region: PRK11165 554290008441 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 554290008442 active site 554290008443 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290008444 substrate binding site [chemical binding]; other site 554290008445 catalytic residues [active] 554290008446 dimer interface [polypeptide binding]; other site 554290008447 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 554290008448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290008449 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 554290008450 dimerization interface [polypeptide binding]; other site 554290008451 putative racemase; Provisional; Region: PRK10200 554290008452 aspartate racemase; Region: asp_race; TIGR00035 554290008453 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 554290008454 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 554290008455 putative substrate translocation pore; other site 554290008456 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 554290008457 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 554290008458 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 554290008459 NADP binding site [chemical binding]; other site 554290008460 homodimer interface [polypeptide binding]; other site 554290008461 active site 554290008462 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 554290008463 putative acyltransferase; Provisional; Region: PRK05790 554290008464 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 554290008465 dimer interface [polypeptide binding]; other site 554290008466 active site 554290008467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290008468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290008469 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 554290008470 dimerization interface [polypeptide binding]; other site 554290008471 Predicted membrane protein [Function unknown]; Region: COG4125 554290008472 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 554290008473 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 554290008474 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 554290008475 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 554290008476 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 554290008477 putative metal binding site [ion binding]; other site 554290008478 putative homodimer interface [polypeptide binding]; other site 554290008479 putative homotetramer interface [polypeptide binding]; other site 554290008480 putative homodimer-homodimer interface [polypeptide binding]; other site 554290008481 putative allosteric switch controlling residues; other site 554290008482 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 554290008483 transcriptional activator SprB; Provisional; Region: PRK15320 554290008484 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14600 554290008485 Protein of unknown function (DUF1401); Region: DUF1401; pfam07180 554290008486 Fimbrial protein; Region: Fimbrial; pfam00419 554290008487 fimbrial chaperone protein StdC; Provisional; Region: PRK15254 554290008488 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290008489 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290008490 fimbrial outer membrane usher protein StdB; Provisional; Region: PRK15255 554290008491 PapC N-terminal domain; Region: PapC_N; pfam13954 554290008492 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290008493 PapC C-terminal domain; Region: PapC_C; pfam13953 554290008494 fimbrial protein StdA; Provisional; Region: PRK15210 554290008495 hypothetical protein; Provisional; Region: PRK10316 554290008496 YfdX protein; Region: YfdX; pfam10938 554290008498 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290008499 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 554290008500 oligomeric interface; other site 554290008501 putative active site [active] 554290008502 homodimer interface [polypeptide binding]; other site 554290008503 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 554290008504 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 554290008505 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 554290008506 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 554290008507 Peptidase family M23; Region: Peptidase_M23; pfam01551 554290008508 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 554290008509 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 554290008510 active site 554290008511 metal binding site [ion binding]; metal-binding site 554290008512 nudix motif; other site 554290008513 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 554290008514 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 554290008515 dimer interface [polypeptide binding]; other site 554290008516 putative anticodon binding site; other site 554290008517 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 554290008518 motif 1; other site 554290008519 active site 554290008520 motif 2; other site 554290008521 motif 3; other site 554290008522 peptide chain release factor 2; Validated; Region: prfB; PRK00578 554290008523 This domain is found in peptide chain release factors; Region: PCRF; smart00937 554290008524 RF-1 domain; Region: RF-1; pfam00472 554290008525 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 554290008526 DHH family; Region: DHH; pfam01368 554290008527 DHHA1 domain; Region: DHHA1; pfam02272 554290008528 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 554290008529 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 554290008530 dimerization domain [polypeptide binding]; other site 554290008531 dimer interface [polypeptide binding]; other site 554290008532 catalytic residues [active] 554290008533 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 554290008534 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 554290008535 active site 554290008536 Int/Topo IB signature motif; other site 554290008537 flavodoxin FldB; Provisional; Region: PRK12359 554290008538 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 554290008539 hypothetical protein; Provisional; Region: PRK10878 554290008540 putative global regulator; Reviewed; Region: PRK09559 554290008541 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 554290008542 hemolysin; Provisional; Region: PRK15087 554290008543 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 554290008544 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 554290008545 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 554290008546 beta-galactosidase; Region: BGL; TIGR03356 554290008547 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 554290008548 glycine dehydrogenase; Provisional; Region: PRK05367 554290008549 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 554290008550 tetramer interface [polypeptide binding]; other site 554290008551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290008552 catalytic residue [active] 554290008553 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 554290008554 tetramer interface [polypeptide binding]; other site 554290008555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290008556 catalytic residue [active] 554290008557 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 554290008558 lipoyl attachment site [posttranslational modification]; other site 554290008559 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 554290008560 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 554290008561 oxidoreductase; Provisional; Region: PRK08013 554290008562 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 554290008563 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 554290008564 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 554290008565 proline aminopeptidase P II; Provisional; Region: PRK10879 554290008566 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 554290008567 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 554290008568 active site 554290008569 hypothetical protein; Reviewed; Region: PRK01736 554290008570 Z-ring-associated protein; Provisional; Region: PRK10972 554290008571 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 554290008572 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 554290008573 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 554290008574 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 554290008575 ligand binding site [chemical binding]; other site 554290008576 NAD binding site [chemical binding]; other site 554290008577 tetramer interface [polypeptide binding]; other site 554290008578 catalytic site [active] 554290008579 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 554290008580 L-serine binding site [chemical binding]; other site 554290008581 ACT domain interface; other site 554290008582 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 554290008583 tetramer (dimer of dimers) interface [polypeptide binding]; other site 554290008584 active site 554290008585 dimer interface [polypeptide binding]; other site 554290008586 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 554290008587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290008588 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 554290008589 putative dimerization interface [polypeptide binding]; other site 554290008590 Uncharacterized conserved protein [Function unknown]; Region: COG2968 554290008591 oxidative stress defense protein; Provisional; Region: PRK11087 554290008592 arginine exporter protein; Provisional; Region: PRK09304 554290008593 mechanosensitive channel MscS; Provisional; Region: PRK10334 554290008594 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290008595 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 554290008596 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 554290008597 active site 554290008598 intersubunit interface [polypeptide binding]; other site 554290008599 zinc binding site [ion binding]; other site 554290008600 Na+ binding site [ion binding]; other site 554290008601 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 554290008602 Phosphoglycerate kinase; Region: PGK; pfam00162 554290008603 substrate binding site [chemical binding]; other site 554290008604 hinge regions; other site 554290008605 ADP binding site [chemical binding]; other site 554290008606 catalytic site [active] 554290008607 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 554290008608 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 554290008609 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 554290008610 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 554290008611 trimer interface [polypeptide binding]; other site 554290008612 putative Zn binding site [ion binding]; other site 554290008613 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 554290008614 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 554290008615 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 554290008616 Walker A/P-loop; other site 554290008617 ATP binding site [chemical binding]; other site 554290008618 Q-loop/lid; other site 554290008619 ABC transporter signature motif; other site 554290008620 Walker B; other site 554290008621 D-loop; other site 554290008622 H-loop/switch region; other site 554290008623 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 554290008624 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 554290008625 Walker A/P-loop; other site 554290008626 ATP binding site [chemical binding]; other site 554290008627 Q-loop/lid; other site 554290008628 ABC transporter signature motif; other site 554290008629 Walker B; other site 554290008630 D-loop; other site 554290008631 H-loop/switch region; other site 554290008632 transketolase; Reviewed; Region: PRK12753 554290008633 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 554290008634 TPP-binding site [chemical binding]; other site 554290008635 dimer interface [polypeptide binding]; other site 554290008636 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 554290008637 PYR/PP interface [polypeptide binding]; other site 554290008638 dimer interface [polypeptide binding]; other site 554290008639 TPP binding site [chemical binding]; other site 554290008640 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 554290008641 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 554290008642 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 554290008643 agmatinase; Region: agmatinase; TIGR01230 554290008644 oligomer interface [polypeptide binding]; other site 554290008645 putative active site [active] 554290008646 Mn binding site [ion binding]; other site 554290008647 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 554290008648 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 554290008649 dimer interface [polypeptide binding]; other site 554290008650 active site 554290008651 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290008652 catalytic residues [active] 554290008653 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 554290008654 Virulence promoting factor; Region: YqgB; pfam11036 554290008655 S-adenosylmethionine synthetase; Validated; Region: PRK05250 554290008656 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 554290008657 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 554290008658 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 554290008659 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 554290008660 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 554290008661 putative substrate translocation pore; other site 554290008662 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 554290008663 hypothetical protein; Provisional; Region: PRK04860 554290008664 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 554290008665 DNA-specific endonuclease I; Provisional; Region: PRK15137 554290008666 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 554290008667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 554290008668 RNA methyltransferase, RsmE family; Region: TIGR00046 554290008669 glutathione synthetase; Provisional; Region: PRK05246 554290008670 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 554290008671 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 554290008672 hypothetical protein; Validated; Region: PRK00228 554290008673 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 554290008674 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 554290008675 Transcriptional regulator [Transcription]; Region: IclR; COG1414 554290008676 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 554290008677 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 554290008678 Walker A motif; other site 554290008679 ATP binding site [chemical binding]; other site 554290008680 Walker B motif; other site 554290008681 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 554290008682 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290008683 catalytic residue [active] 554290008684 YGGT family; Region: YGGT; pfam02325 554290008685 YGGT family; Region: YGGT; pfam02325 554290008686 hypothetical protein; Validated; Region: PRK05090 554290008687 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 554290008688 active site 554290008689 dimerization interface [polypeptide binding]; other site 554290008690 HemN family oxidoreductase; Provisional; Region: PRK05660 554290008691 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 554290008692 FeS/SAM binding site; other site 554290008693 HemN C-terminal domain; Region: HemN_C; pfam06969 554290008694 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 554290008695 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 554290008696 homodimer interface [polypeptide binding]; other site 554290008697 active site 554290008698 hypothetical protein; Provisional; Region: PRK10626 554290008699 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 554290008700 hypothetical protein; Provisional; Region: PRK11702 554290008701 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 554290008702 adenine DNA glycosylase; Provisional; Region: PRK10880 554290008703 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 554290008704 minor groove reading motif; other site 554290008705 helix-hairpin-helix signature motif; other site 554290008706 substrate binding pocket [chemical binding]; other site 554290008707 active site 554290008708 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 554290008709 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 554290008710 DNA binding and oxoG recognition site [nucleotide binding] 554290008711 oxidative damage protection protein; Provisional; Region: PRK05408 554290008712 murein transglycosylase C; Provisional; Region: mltC; PRK11671 554290008713 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 554290008714 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 554290008715 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290008716 catalytic residue [active] 554290008717 nucleoside transporter; Region: 2A0110; TIGR00889 554290008718 ornithine decarboxylase; Provisional; Region: PRK13578 554290008719 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 554290008720 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 554290008721 homodimer interface [polypeptide binding]; other site 554290008722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290008723 catalytic residue [active] 554290008724 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 554290008725 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 554290008729 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 554290008731 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 554290008732 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 554290008733 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 554290008734 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 554290008735 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 554290008736 DNA binding residues [nucleotide binding] 554290008737 dimerization interface [polypeptide binding]; other site 554290008738 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 554290008739 Amino acid permease; Region: AA_permease_2; pfam13520 554290008740 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 554290008741 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 554290008742 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 554290008743 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 554290008744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 554290008745 NAD(P) binding site [chemical binding]; other site 554290008746 catalytic residues [active] 554290008747 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 554290008748 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 554290008749 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 554290008750 active site 554290008751 catalytic site [active] 554290008752 Zn binding site [ion binding]; other site 554290008753 tetramer interface [polypeptide binding]; other site 554290008754 Predicted amidohydrolase [General function prediction only]; Region: COG0388 554290008755 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 554290008756 putative active site [active] 554290008757 catalytic triad [active] 554290008758 putative dimer interface [polypeptide binding]; other site 554290008759 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 554290008760 D-galactonate transporter; Region: 2A0114; TIGR00893 554290008761 putative substrate translocation pore; other site 554290008762 mannonate dehydratase; Provisional; Region: PRK03906 554290008763 mannonate dehydratase; Region: uxuA; TIGR00695 554290008764 D-mannonate oxidoreductase; Provisional; Region: PRK15037 554290008765 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 554290008766 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 554290008767 Glucuronate isomerase; Region: UxaC; pfam02614 554290008768 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 554290008769 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290008770 dimer interface [polypeptide binding]; other site 554290008771 putative CheW interface [polypeptide binding]; other site 554290008772 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 554290008773 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 554290008774 CHAP domain; Region: CHAP; pfam05257 554290008775 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 554290008776 putative S-transferase; Provisional; Region: PRK11752 554290008777 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 554290008778 C-terminal domain interface [polypeptide binding]; other site 554290008779 GSH binding site (G-site) [chemical binding]; other site 554290008780 dimer interface [polypeptide binding]; other site 554290008781 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 554290008782 dimer interface [polypeptide binding]; other site 554290008783 N-terminal domain interface [polypeptide binding]; other site 554290008784 active site 554290008785 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 554290008786 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 554290008788 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 554290008789 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 554290008790 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 554290008791 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 554290008792 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 554290008793 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 554290008794 putative substrate-binding site; other site 554290008795 nickel binding site [ion binding]; other site 554290008796 hydrogenase 2 large subunit; Provisional; Region: PRK10467 554290008797 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 554290008798 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 554290008799 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 554290008800 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 554290008801 4Fe-4S binding domain; Region: Fer4_6; pfam12837 554290008802 hydrogenase 2 small subunit; Provisional; Region: PRK10468 554290008803 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 554290008804 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 554290008805 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 554290008806 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 554290008807 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 554290008808 dimerization interface [polypeptide binding]; other site 554290008809 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290008810 dimer interface [polypeptide binding]; other site 554290008811 putative CheW interface [polypeptide binding]; other site 554290008812 hypothetical protein; Provisional; Region: PRK05208 554290008813 oxidoreductase; Provisional; Region: PRK07985 554290008814 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 554290008815 NAD binding site [chemical binding]; other site 554290008816 metal binding site [ion binding]; metal-binding site 554290008817 active site 554290008818 biopolymer transport protein ExbD; Provisional; Region: PRK11267 554290008819 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 554290008820 biopolymer transport protein ExbB; Provisional; Region: PRK10414 554290008821 cystathionine beta-lyase; Provisional; Region: PRK08114 554290008822 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 554290008823 homodimer interface [polypeptide binding]; other site 554290008824 substrate-cofactor binding pocket; other site 554290008825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290008826 catalytic residue [active] 554290008827 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 554290008828 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 554290008829 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 554290008830 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 554290008831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290008832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290008833 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 554290008834 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 554290008835 dimer interface [polypeptide binding]; other site 554290008836 active site 554290008837 metal binding site [ion binding]; metal-binding site 554290008838 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 554290008839 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 554290008840 active site 554290008841 catalytic tetrad [active] 554290008842 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 554290008843 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 554290008844 transmembrane helices; other site 554290008845 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 554290008846 nucleotide binding site/active site [active] 554290008847 catalytic residue [active] 554290008848 hypothetical protein; Provisional; Region: PRK01254 554290008849 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 554290008850 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 554290008851 YARHG domain; Region: YARHG; pfam13308 554290008853 FtsI repressor; Provisional; Region: PRK10883 554290008854 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 554290008855 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 554290008856 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 554290008857 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 554290008858 putative acyl-acceptor binding pocket; other site 554290008859 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 554290008860 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 554290008861 CAP-like domain; other site 554290008862 active site 554290008863 primary dimer interface [polypeptide binding]; other site 554290008864 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 554290008865 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290008866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290008867 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 554290008868 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 554290008869 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 554290008870 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 554290008871 active site 554290008872 phosphorylation site [posttranslational modification] 554290008873 intermolecular recognition site; other site 554290008874 dimerization interface [polypeptide binding]; other site 554290008875 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 554290008876 DNA binding site [nucleotide binding] 554290008877 sensor protein QseC; Provisional; Region: PRK10337 554290008878 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 554290008879 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 554290008880 dimer interface [polypeptide binding]; other site 554290008881 phosphorylation site [posttranslational modification] 554290008882 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 554290008883 ATP binding site [chemical binding]; other site 554290008884 Mg2+ binding site [ion binding]; other site 554290008885 G-X-G motif; other site 554290008886 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 554290008887 Uncharacterized conserved protein [Function unknown]; Region: COG1359 554290008888 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 554290008889 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 554290008890 ATP binding site [chemical binding]; other site 554290008891 Mg2+ binding site [ion binding]; other site 554290008892 G-X-G motif; other site 554290008893 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 554290008894 anchoring element; other site 554290008895 dimer interface [polypeptide binding]; other site 554290008896 ATP binding site [chemical binding]; other site 554290008897 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 554290008898 active site 554290008899 metal binding site [ion binding]; metal-binding site 554290008900 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 554290008901 esterase YqiA; Provisional; Region: PRK11071 554290008902 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 554290008903 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 554290008904 active site 554290008905 metal binding site [ion binding]; metal-binding site 554290008906 hexamer interface [polypeptide binding]; other site 554290008907 putative dehydrogenase; Provisional; Region: PRK11039 554290008908 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 554290008909 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 554290008910 dimer interface [polypeptide binding]; other site 554290008911 ADP-ribose binding site [chemical binding]; other site 554290008912 active site 554290008913 nudix motif; other site 554290008914 metal binding site [ion binding]; metal-binding site 554290008915 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 554290008916 hypothetical protein; Provisional; Region: PRK11653 554290008917 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 554290008918 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 554290008919 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 554290008920 putative active site [active] 554290008921 metal binding site [ion binding]; metal-binding site 554290008922 zinc transporter ZupT; Provisional; Region: PRK04201 554290008923 ZIP Zinc transporter; Region: Zip; pfam02535 554290008924 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 554290008925 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 554290008926 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 554290008927 catalytic residues [active] 554290008928 hinge region; other site 554290008929 alpha helical domain; other site 554290008930 putative disulfide oxidoreductase; Provisional; Region: PRK04307 554290008931 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 554290008932 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 554290008933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 554290008934 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 554290008935 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 554290008936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 554290008937 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 554290008938 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 554290008939 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 554290008940 putative ribose interaction site [chemical binding]; other site 554290008941 putative ADP binding site [chemical binding]; other site 554290008942 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 554290008943 active site 554290008944 nucleotide binding site [chemical binding]; other site 554290008945 HIGH motif; other site 554290008946 KMSKS motif; other site 554290008947 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 554290008948 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 554290008949 metal binding triad; other site 554290008950 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 554290008951 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 554290008952 metal binding triad; other site 554290008953 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 554290008954 Uncharacterized conserved protein [Function unknown]; Region: COG3025 554290008955 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 554290008956 putative active site [active] 554290008957 putative metal binding residues [ion binding]; other site 554290008958 signature motif; other site 554290008959 putative triphosphate binding site [ion binding]; other site 554290008960 CHAD domain; Region: CHAD; pfam05235 554290008961 SH3 domain-containing protein; Provisional; Region: PRK10884 554290008962 Bacterial SH3 domain homologues; Region: SH3b; smart00287 554290008963 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 554290008964 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 554290008965 active site 554290008966 NTP binding site [chemical binding]; other site 554290008967 metal binding triad [ion binding]; metal-binding site 554290008968 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 554290008969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 554290008970 Zn2+ binding site [ion binding]; other site 554290008971 Mg2+ binding site [ion binding]; other site 554290008972 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 554290008973 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 554290008974 homooctamer interface [polypeptide binding]; other site 554290008975 active site 554290008976 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 554290008977 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 554290008978 UGMP family protein; Validated; Region: PRK09604 554290008979 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 554290008980 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 554290008981 DNA primase; Validated; Region: dnaG; PRK05667 554290008982 CHC2 zinc finger; Region: zf-CHC2; pfam01807 554290008983 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 554290008984 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 554290008985 active site 554290008986 metal binding site [ion binding]; metal-binding site 554290008987 interdomain interaction site; other site 554290008988 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 554290008989 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 554290008990 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 554290008991 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 554290008992 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 554290008993 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 554290008994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 554290008995 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 554290008996 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 554290008997 DNA binding residues [nucleotide binding] 554290008998 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 554290008999 active site 554290009000 SUMO-1 interface [polypeptide binding]; other site 554290009001 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 554290009002 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 554290009003 FAD binding pocket [chemical binding]; other site 554290009004 FAD binding motif [chemical binding]; other site 554290009005 phosphate binding motif [ion binding]; other site 554290009006 NAD binding pocket [chemical binding]; other site 554290009007 Predicted transcriptional regulators [Transcription]; Region: COG1695 554290009008 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 554290009009 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 554290009010 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 554290009011 dimerization interface [polypeptide binding]; other site 554290009012 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 554290009013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290009014 dimer interface [polypeptide binding]; other site 554290009015 putative CheW interface [polypeptide binding]; other site 554290009016 PAS fold; Region: PAS_3; pfam08447 554290009017 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 554290009018 putative active site [active] 554290009019 heme pocket [chemical binding]; other site 554290009020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 554290009021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290009022 dimer interface [polypeptide binding]; other site 554290009023 putative CheW interface [polypeptide binding]; other site 554290009024 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 554290009025 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 554290009026 inhibitor-cofactor binding pocket; inhibition site 554290009027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290009028 catalytic residue [active] 554290009029 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 554290009030 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 554290009031 active site 554290009032 FMN binding site [chemical binding]; other site 554290009033 2,4-decadienoyl-CoA binding site; other site 554290009034 catalytic residue [active] 554290009035 4Fe-4S cluster binding site [ion binding]; other site 554290009036 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 554290009037 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290009038 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 554290009039 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 554290009040 S-adenosylmethionine binding site [chemical binding]; other site 554290009041 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 554290009042 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 554290009043 putative active site [active] 554290009044 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 554290009045 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 554290009046 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 554290009047 serine/threonine transporter SstT; Provisional; Region: PRK13628 554290009048 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 554290009049 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 554290009050 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 554290009051 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 554290009052 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 554290009053 Predicted membrane protein [Function unknown]; Region: COG5393 554290009054 YqjK-like protein; Region: YqjK; pfam13997 554290009055 Predicted membrane protein [Function unknown]; Region: COG2259 554290009056 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 554290009057 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 554290009058 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 554290009059 putative dimer interface [polypeptide binding]; other site 554290009060 N-terminal domain interface [polypeptide binding]; other site 554290009061 putative substrate binding pocket (H-site) [chemical binding]; other site 554290009062 Predicted membrane protein [Function unknown]; Region: COG3152 554290009063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290009064 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 554290009065 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 554290009066 dimerization interface [polypeptide binding]; other site 554290009067 Pirin-related protein [General function prediction only]; Region: COG1741 554290009068 Pirin; Region: Pirin; pfam02678 554290009070 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 554290009071 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 554290009072 serine transporter; Region: stp; TIGR00814 554290009073 L-serine dehydratase TdcG; Provisional; Region: PRK15040 554290009074 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 554290009075 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 554290009076 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 554290009077 Pyruvate formate lyase 1; Region: PFL1; cd01678 554290009078 coenzyme A binding site [chemical binding]; other site 554290009079 active site 554290009080 catalytic residues [active] 554290009081 glycine loop; other site 554290009082 propionate/acetate kinase; Provisional; Region: PRK12379 554290009083 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 554290009084 threonine/serine transporter TdcC; Provisional; Region: PRK13629 554290009085 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 554290009086 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 554290009087 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 554290009088 tetramer interface [polypeptide binding]; other site 554290009089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290009090 catalytic residue [active] 554290009091 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 554290009092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290009093 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 554290009094 putative substrate binding pocket [chemical binding]; other site 554290009095 putative dimerization interface [polypeptide binding]; other site 554290009096 glycerate kinase I; Provisional; Region: PRK10342 554290009097 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 554290009098 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 554290009099 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 554290009101 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290009102 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 554290009103 substrate binding site [chemical binding]; other site 554290009104 ATP binding site [chemical binding]; other site 554290009105 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290009106 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290009107 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290009108 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 554290009109 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 554290009110 intersubunit interface [polypeptide binding]; other site 554290009111 active site 554290009112 zinc binding site [ion binding]; other site 554290009113 Na+ binding site [ion binding]; other site 554290009114 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 554290009115 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 554290009116 putative substrate binding site [chemical binding]; other site 554290009117 putative ATP binding site [chemical binding]; other site 554290009118 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 554290009119 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 554290009120 active site 554290009121 P-loop; other site 554290009122 phosphorylation site [posttranslational modification] 554290009123 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 554290009124 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 554290009125 active site 554290009126 phosphorylation site [posttranslational modification] 554290009127 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 554290009128 dimerization domain swap beta strand [polypeptide binding]; other site 554290009129 regulatory protein interface [polypeptide binding]; other site 554290009130 active site 554290009131 regulatory phosphorylation site [posttranslational modification]; other site 554290009132 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 554290009133 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 554290009134 active site 554290009135 phosphorylation site [posttranslational modification] 554290009136 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 554290009137 active site 554290009138 P-loop; other site 554290009139 phosphorylation site [posttranslational modification] 554290009140 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 554290009141 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 554290009142 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 554290009143 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 554290009144 putative NAD(P) binding site [chemical binding]; other site 554290009145 catalytic Zn binding site [ion binding]; other site 554290009146 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290009147 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290009148 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290009149 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 554290009150 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 554290009151 putative SAM binding site [chemical binding]; other site 554290009152 putative homodimer interface [polypeptide binding]; other site 554290009153 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 554290009154 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 554290009155 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 554290009156 putative ligand binding site [chemical binding]; other site 554290009157 TIGR00252 family protein; Region: TIGR00252 554290009158 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 554290009159 dimer interface [polypeptide binding]; other site 554290009160 active site 554290009161 outer membrane lipoprotein; Provisional; Region: PRK11023 554290009162 BON domain; Region: BON; pfam04972 554290009163 BON domain; Region: BON; pfam04972 554290009164 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 554290009165 NADH(P)-binding; Region: NAD_binding_10; pfam13460 554290009166 NAD binding site [chemical binding]; other site 554290009167 active site 554290009168 intracellular protease, PfpI family; Region: PfpI; TIGR01382 554290009169 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 554290009170 proposed catalytic triad [active] 554290009171 conserved cys residue [active] 554290009172 hypothetical protein; Provisional; Region: PRK03467 554290009173 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 554290009174 GIY-YIG motif/motif A; other site 554290009175 putative active site [active] 554290009176 putative metal binding site [ion binding]; other site 554290009177 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 554290009178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290009179 Coenzyme A binding pocket [chemical binding]; other site 554290009180 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 554290009181 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 554290009182 Peptidase family U32; Region: Peptidase_U32; pfam01136 554290009183 putative protease; Provisional; Region: PRK15447 554290009184 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 554290009186 tryptophan permease; Provisional; Region: PRK10483 554290009187 aromatic amino acid transport protein; Region: araaP; TIGR00837 554290009188 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 554290009189 DEAD-like helicases superfamily; Region: DEXDc; smart00487 554290009190 ATP binding site [chemical binding]; other site 554290009191 Mg++ binding site [ion binding]; other site 554290009192 motif III; other site 554290009193 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 554290009194 nucleotide binding region [chemical binding]; other site 554290009195 ATP-binding site [chemical binding]; other site 554290009196 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 554290009197 putative RNA binding site [nucleotide binding]; other site 554290009198 lipoprotein NlpI; Provisional; Region: PRK11189 554290009199 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 554290009200 binding surface 554290009201 TPR motif; other site 554290009202 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 554290009203 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 554290009204 RNase E interface [polypeptide binding]; other site 554290009205 trimer interface [polypeptide binding]; other site 554290009206 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 554290009207 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 554290009208 RNase E interface [polypeptide binding]; other site 554290009209 trimer interface [polypeptide binding]; other site 554290009210 active site 554290009211 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 554290009212 putative nucleic acid binding region [nucleotide binding]; other site 554290009213 G-X-X-G motif; other site 554290009214 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 554290009215 RNA binding site [nucleotide binding]; other site 554290009216 domain interface; other site 554290009217 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 554290009218 16S/18S rRNA binding site [nucleotide binding]; other site 554290009219 S13e-L30e interaction site [polypeptide binding]; other site 554290009220 25S rRNA binding site [nucleotide binding]; other site 554290009221 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 554290009222 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 554290009223 RNA binding site [nucleotide binding]; other site 554290009224 active site 554290009225 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 554290009226 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 554290009227 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 554290009228 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 554290009229 translation initiation factor IF-2; Region: IF-2; TIGR00487 554290009230 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 554290009231 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 554290009232 G1 box; other site 554290009233 putative GEF interaction site [polypeptide binding]; other site 554290009234 GTP/Mg2+ binding site [chemical binding]; other site 554290009235 Switch I region; other site 554290009236 G2 box; other site 554290009237 G3 box; other site 554290009238 Switch II region; other site 554290009239 G4 box; other site 554290009240 G5 box; other site 554290009241 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 554290009242 Translation-initiation factor 2; Region: IF-2; pfam11987 554290009243 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 554290009244 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 554290009245 NusA N-terminal domain; Region: NusA_N; pfam08529 554290009246 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 554290009247 RNA binding site [nucleotide binding]; other site 554290009248 homodimer interface [polypeptide binding]; other site 554290009249 NusA-like KH domain; Region: KH_5; pfam13184 554290009250 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 554290009251 G-X-X-G motif; other site 554290009252 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 554290009253 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 554290009254 ribosome maturation protein RimP; Reviewed; Region: PRK00092 554290009255 hypothetical protein; Provisional; Region: PRK14641 554290009256 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 554290009257 putative oligomer interface [polypeptide binding]; other site 554290009258 putative RNA binding site [nucleotide binding]; other site 554290009259 argininosuccinate synthase; Validated; Region: PRK05370 554290009260 argininosuccinate synthase; Provisional; Region: PRK13820 554290009261 Preprotein translocase SecG subunit; Region: SecG; pfam03840 554290009262 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 554290009263 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 554290009264 active site 554290009265 substrate binding site [chemical binding]; other site 554290009266 metal binding site [ion binding]; metal-binding site 554290009267 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 554290009268 dihydropteroate synthase; Region: DHPS; TIGR01496 554290009269 substrate binding pocket [chemical binding]; other site 554290009270 dimer interface [polypeptide binding]; other site 554290009271 inhibitor binding site; inhibition site 554290009272 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 554290009273 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 554290009274 Walker A motif; other site 554290009275 ATP binding site [chemical binding]; other site 554290009276 Walker B motif; other site 554290009277 arginine finger; other site 554290009278 Peptidase family M41; Region: Peptidase_M41; pfam01434 554290009279 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 554290009280 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 554290009281 S-adenosylmethionine binding site [chemical binding]; other site 554290009282 RNA-binding protein YhbY; Provisional; Region: PRK10343 554290009283 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 554290009284 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 554290009285 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 554290009286 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 554290009287 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 554290009288 GTPase CgtA; Reviewed; Region: obgE; PRK12298 554290009289 GTP1/OBG; Region: GTP1_OBG; pfam01018 554290009290 Obg GTPase; Region: Obg; cd01898 554290009291 G1 box; other site 554290009292 GTP/Mg2+ binding site [chemical binding]; other site 554290009293 Switch I region; other site 554290009294 G2 box; other site 554290009295 G3 box; other site 554290009296 Switch II region; other site 554290009297 G4 box; other site 554290009298 G5 box; other site 554290009299 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 554290009300 EamA-like transporter family; Region: EamA; pfam00892 554290009301 EamA-like transporter family; Region: EamA; cl17759 554290009302 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 554290009303 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 554290009304 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 554290009305 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 554290009306 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 554290009307 substrate binding pocket [chemical binding]; other site 554290009308 chain length determination region; other site 554290009309 substrate-Mg2+ binding site; other site 554290009310 catalytic residues [active] 554290009311 aspartate-rich region 1; other site 554290009312 active site lid residues [active] 554290009313 aspartate-rich region 2; other site 554290009314 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 554290009315 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 554290009316 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 554290009317 hinge; other site 554290009318 active site 554290009319 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 554290009320 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 554290009321 anti sigma factor interaction site; other site 554290009322 regulatory phosphorylation site [posttranslational modification]; other site 554290009323 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 554290009324 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 554290009325 mce related protein; Region: MCE; pfam02470 554290009326 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 554290009327 conserved hypothetical integral membrane protein; Region: TIGR00056 554290009328 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 554290009329 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 554290009330 Walker A/P-loop; other site 554290009331 ATP binding site [chemical binding]; other site 554290009332 Q-loop/lid; other site 554290009333 ABC transporter signature motif; other site 554290009334 Walker B; other site 554290009335 D-loop; other site 554290009336 H-loop/switch region; other site 554290009337 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 554290009338 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 554290009339 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 554290009340 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 554290009341 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 554290009342 putative active site [active] 554290009343 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 554290009344 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 554290009345 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 554290009346 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 554290009347 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 554290009348 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 554290009349 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 554290009350 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 554290009351 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 554290009352 Walker A/P-loop; other site 554290009353 ATP binding site [chemical binding]; other site 554290009354 Q-loop/lid; other site 554290009355 ABC transporter signature motif; other site 554290009356 Walker B; other site 554290009357 D-loop; other site 554290009358 H-loop/switch region; other site 554290009359 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 554290009360 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 554290009361 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 554290009362 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 554290009363 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 554290009364 30S subunit binding site; other site 554290009365 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 554290009366 active site 554290009367 phosphorylation site [posttranslational modification] 554290009368 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 554290009369 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 554290009370 dimerization domain swap beta strand [polypeptide binding]; other site 554290009371 regulatory protein interface [polypeptide binding]; other site 554290009372 active site 554290009373 regulatory phosphorylation site [posttranslational modification]; other site 554290009374 hypothetical protein; Provisional; Region: PRK10345 554290009375 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 554290009376 Transglycosylase; Region: Transgly; cl17702 554290009377 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 554290009378 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 554290009379 conserved cys residue [active] 554290009380 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 554290009381 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 554290009382 putative active site [active] 554290009383 heme pocket [chemical binding]; other site 554290009384 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 554290009385 dimer interface [polypeptide binding]; other site 554290009386 phosphorylation site [posttranslational modification] 554290009387 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 554290009388 ATP binding site [chemical binding]; other site 554290009389 Mg2+ binding site [ion binding]; other site 554290009390 G-X-G motif; other site 554290009391 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 554290009392 active site 554290009393 phosphorylation site [posttranslational modification] 554290009394 intermolecular recognition site; other site 554290009395 dimerization interface [polypeptide binding]; other site 554290009396 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 554290009397 putative binding surface; other site 554290009398 active site 554290009399 radical SAM protein, TIGR01212 family; Region: TIGR01212 554290009400 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 554290009401 FeS/SAM binding site; other site 554290009402 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 554290009403 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 554290009404 active site 554290009405 dimer interface [polypeptide binding]; other site 554290009406 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 554290009407 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 554290009408 active site 554290009409 FMN binding site [chemical binding]; other site 554290009410 substrate binding site [chemical binding]; other site 554290009411 3Fe-4S cluster binding site [ion binding]; other site 554290009412 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 554290009413 domain interface; other site 554290009414 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 554290009415 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290009416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290009417 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 554290009418 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 554290009419 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 554290009420 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 554290009421 Na binding site [ion binding]; other site 554290009422 putative substrate binding site [chemical binding]; other site 554290009423 cytosine deaminase; Provisional; Region: PRK09230 554290009424 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 554290009425 active site 554290009426 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 554290009427 N-acetylmannosamine kinase; Provisional; Region: PRK05082 554290009428 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290009429 nucleotide binding site [chemical binding]; other site 554290009430 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 554290009431 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 554290009432 putative active site cavity [active] 554290009433 putative sialic acid transporter; Provisional; Region: PRK03893 554290009434 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 554290009435 putative substrate translocation pore; other site 554290009436 N-acetylneuraminate lyase; Provisional; Region: PRK04147 554290009437 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 554290009438 inhibitor site; inhibition site 554290009439 active site 554290009440 dimer interface [polypeptide binding]; other site 554290009441 catalytic residue [active] 554290009442 transcriptional regulator NanR; Provisional; Region: PRK03837 554290009443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290009444 DNA-binding site [nucleotide binding]; DNA binding site 554290009445 FCD domain; Region: FCD; pfam07729 554290009446 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 554290009447 stringent starvation protein A; Provisional; Region: sspA; PRK09481 554290009448 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 554290009449 C-terminal domain interface [polypeptide binding]; other site 554290009450 putative GSH binding site (G-site) [chemical binding]; other site 554290009451 dimer interface [polypeptide binding]; other site 554290009452 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 554290009453 dimer interface [polypeptide binding]; other site 554290009454 N-terminal domain interface [polypeptide binding]; other site 554290009455 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 554290009456 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 554290009457 23S rRNA interface [nucleotide binding]; other site 554290009458 L3 interface [polypeptide binding]; other site 554290009459 Predicted ATPase [General function prediction only]; Region: COG1485 554290009460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 554290009461 hypothetical protein; Provisional; Region: PRK11677 554290009462 serine endoprotease; Provisional; Region: PRK10139 554290009463 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 554290009464 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 554290009465 protein binding site [polypeptide binding]; other site 554290009466 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 554290009467 serine endoprotease; Provisional; Region: PRK10898 554290009468 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 554290009469 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 554290009470 Triphosphoribosyl-dephospho-CoA synthetase [Coenzyme metabolism]; Region: CitG; COG1767 554290009471 oxaloacetate decarboxylase subunit beta; Provisional; Region: PRK15476 554290009472 oxaloacetate decarboxylase; Provisional; Region: PRK14040 554290009473 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 554290009474 active site 554290009475 catalytic residues [active] 554290009476 metal binding site [ion binding]; metal-binding site 554290009477 homodimer binding site [polypeptide binding]; other site 554290009478 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 554290009479 carboxyltransferase (CT) interaction site; other site 554290009480 biotinylation site [posttranslational modification]; other site 554290009481 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 554290009482 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 554290009483 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 554290009485 Transcriptional regulators [Transcription]; Region: GntR; COG1802 554290009486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290009487 DNA-binding site [nucleotide binding]; DNA binding site 554290009488 FCD domain; Region: FCD; pfam07729 554290009489 Transcriptional regulators [Transcription]; Region: GntR; COG1802 554290009490 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290009491 DNA-binding site [nucleotide binding]; DNA binding site 554290009492 malate dehydrogenase; Provisional; Region: PRK05086 554290009493 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 554290009494 NAD binding site [chemical binding]; other site 554290009495 dimerization interface [polypeptide binding]; other site 554290009496 Substrate binding site [chemical binding]; other site 554290009497 arginine repressor; Provisional; Region: PRK05066 554290009498 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 554290009499 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 554290009500 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290009501 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290009502 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 554290009503 RNAase interaction site [polypeptide binding]; other site 554290009504 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 554290009505 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 554290009506 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 554290009507 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290009508 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290009509 efflux system membrane protein; Provisional; Region: PRK11594 554290009510 transcriptional regulator; Provisional; Region: PRK10632 554290009511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290009512 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 554290009513 putative effector binding pocket; other site 554290009514 dimerization interface [polypeptide binding]; other site 554290009515 protease TldD; Provisional; Region: tldD; PRK10735 554290009516 hypothetical protein; Provisional; Region: PRK10899 554290009517 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 554290009518 ribonuclease G; Provisional; Region: PRK11712 554290009519 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 554290009520 homodimer interface [polypeptide binding]; other site 554290009521 oligonucleotide binding site [chemical binding]; other site 554290009522 Maf-like protein; Region: Maf; pfam02545 554290009523 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 554290009524 active site 554290009525 dimer interface [polypeptide binding]; other site 554290009526 rod shape-determining protein MreD; Provisional; Region: PRK11060 554290009527 rod shape-determining protein MreC; Region: mreC; TIGR00219 554290009528 rod shape-determining protein MreC; Region: MreC; pfam04085 554290009529 rod shape-determining protein MreB; Provisional; Region: PRK13927 554290009530 MreB and similar proteins; Region: MreB_like; cd10225 554290009531 nucleotide binding site [chemical binding]; other site 554290009532 Mg binding site [ion binding]; other site 554290009533 putative protofilament interaction site [polypeptide binding]; other site 554290009534 RodZ interaction site [polypeptide binding]; other site 554290009535 regulatory protein CsrD; Provisional; Region: PRK11059 554290009536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290009537 metal binding site [ion binding]; metal-binding site 554290009538 active site 554290009539 I-site; other site 554290009540 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 554290009541 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 554290009542 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 554290009543 NADP binding site [chemical binding]; other site 554290009544 dimer interface [polypeptide binding]; other site 554290009545 TMAO/DMSO reductase; Reviewed; Region: PRK05363 554290009546 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 554290009547 Moco binding site; other site 554290009548 metal coordination site [ion binding]; other site 554290009549 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 554290009550 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 554290009551 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 554290009552 carboxyltransferase (CT) interaction site; other site 554290009553 biotinylation site [posttranslational modification]; other site 554290009554 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 554290009555 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 554290009556 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 554290009557 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 554290009558 hypothetical protein; Provisional; Region: PRK10633 554290009559 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 554290009560 Na binding site [ion binding]; other site 554290009561 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 554290009562 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 554290009563 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 554290009564 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 554290009565 FMN binding site [chemical binding]; other site 554290009566 active site 554290009567 catalytic residues [active] 554290009568 substrate binding site [chemical binding]; other site 554290009569 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 554290009570 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 554290009572 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 554290009573 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 554290009574 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 554290009575 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 554290009576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290009577 metal binding site [ion binding]; metal-binding site 554290009578 active site 554290009579 I-site; other site 554290009580 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 554290009581 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 554290009582 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290009583 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 554290009584 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 554290009585 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290009586 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290009587 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 554290009588 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 554290009589 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 554290009590 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 554290009591 trimer interface [polypeptide binding]; other site 554290009592 putative metal binding site [ion binding]; other site 554290009593 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 554290009594 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 554290009595 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 554290009596 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 554290009597 shikimate binding site; other site 554290009598 NAD(P) binding site [chemical binding]; other site 554290009599 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 554290009600 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 554290009601 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 554290009602 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 554290009603 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 554290009604 hypothetical protein; Validated; Region: PRK03430 554290009605 hypothetical protein; Provisional; Region: PRK10736 554290009606 DNA protecting protein DprA; Region: dprA; TIGR00732 554290009607 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 554290009608 active site 554290009609 catalytic residues [active] 554290009610 metal binding site [ion binding]; metal-binding site 554290009611 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 554290009612 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 554290009613 putative active site [active] 554290009614 substrate binding site [chemical binding]; other site 554290009615 putative cosubstrate binding site; other site 554290009616 catalytic site [active] 554290009617 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 554290009618 substrate binding site [chemical binding]; other site 554290009619 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 554290009620 putative RNA binding site [nucleotide binding]; other site 554290009621 16S rRNA methyltransferase B; Provisional; Region: PRK10901 554290009622 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 554290009623 S-adenosylmethionine binding site [chemical binding]; other site 554290009624 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 554290009625 TrkA-N domain; Region: TrkA_N; pfam02254 554290009626 TrkA-C domain; Region: TrkA_C; pfam02080 554290009627 TrkA-N domain; Region: TrkA_N; pfam02254 554290009628 TrkA-C domain; Region: TrkA_C; pfam02080 554290009629 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 554290009630 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 554290009631 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 554290009632 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 554290009633 DNA binding residues [nucleotide binding] 554290009634 dimer interface [polypeptide binding]; other site 554290009635 metal binding site [ion binding]; metal-binding site 554290009636 hypothetical protein; Provisional; Region: PRK10203 554290009637 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 554290009638 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 554290009639 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 554290009640 alphaNTD homodimer interface [polypeptide binding]; other site 554290009641 alphaNTD - beta interaction site [polypeptide binding]; other site 554290009642 alphaNTD - beta' interaction site [polypeptide binding]; other site 554290009643 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 554290009644 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 554290009645 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 554290009646 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 554290009647 RNA binding surface [nucleotide binding]; other site 554290009648 30S ribosomal protein S11; Validated; Region: PRK05309 554290009649 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 554290009650 30S ribosomal protein S13; Region: bact_S13; TIGR03631 554290009651 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 554290009652 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 554290009653 SecY translocase; Region: SecY; pfam00344 554290009654 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 554290009655 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 554290009656 23S rRNA binding site [nucleotide binding]; other site 554290009657 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 554290009658 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 554290009659 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 554290009660 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 554290009661 23S rRNA interface [nucleotide binding]; other site 554290009662 5S rRNA interface [nucleotide binding]; other site 554290009663 L27 interface [polypeptide binding]; other site 554290009664 L5 interface [polypeptide binding]; other site 554290009665 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 554290009666 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 554290009667 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 554290009668 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 554290009669 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 554290009670 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 554290009671 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 554290009672 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 554290009673 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 554290009674 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 554290009675 RNA binding site [nucleotide binding]; other site 554290009676 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 554290009677 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 554290009678 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 554290009679 23S rRNA interface [nucleotide binding]; other site 554290009680 putative translocon interaction site; other site 554290009681 signal recognition particle (SRP54) interaction site; other site 554290009682 L23 interface [polypeptide binding]; other site 554290009683 trigger factor interaction site; other site 554290009684 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 554290009685 23S rRNA interface [nucleotide binding]; other site 554290009686 5S rRNA interface [nucleotide binding]; other site 554290009687 putative antibiotic binding site [chemical binding]; other site 554290009688 L25 interface [polypeptide binding]; other site 554290009689 L27 interface [polypeptide binding]; other site 554290009690 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 554290009691 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 554290009692 G-X-X-G motif; other site 554290009693 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 554290009694 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 554290009695 protein-rRNA interface [nucleotide binding]; other site 554290009696 putative translocon binding site; other site 554290009697 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 554290009698 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 554290009699 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 554290009700 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 554290009701 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 554290009702 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 554290009703 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 554290009704 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 554290009705 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 554290009706 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 554290009707 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 554290009708 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 554290009709 heme binding site [chemical binding]; other site 554290009710 ferroxidase pore; other site 554290009711 ferroxidase diiron center [ion binding]; other site 554290009712 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 554290009713 elongation factor Tu; Reviewed; Region: PRK00049 554290009714 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 554290009715 G1 box; other site 554290009716 GEF interaction site [polypeptide binding]; other site 554290009717 GTP/Mg2+ binding site [chemical binding]; other site 554290009718 Switch I region; other site 554290009719 G2 box; other site 554290009720 G3 box; other site 554290009721 Switch II region; other site 554290009722 G4 box; other site 554290009723 G5 box; other site 554290009724 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 554290009725 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 554290009726 Antibiotic Binding Site [chemical binding]; other site 554290009727 elongation factor G; Reviewed; Region: PRK00007 554290009728 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 554290009729 G1 box; other site 554290009730 putative GEF interaction site [polypeptide binding]; other site 554290009731 GTP/Mg2+ binding site [chemical binding]; other site 554290009732 Switch I region; other site 554290009733 G2 box; other site 554290009734 G3 box; other site 554290009735 Switch II region; other site 554290009736 G4 box; other site 554290009737 G5 box; other site 554290009738 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 554290009739 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 554290009740 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 554290009741 30S ribosomal protein S7; Validated; Region: PRK05302 554290009742 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 554290009743 S17 interaction site [polypeptide binding]; other site 554290009744 S8 interaction site; other site 554290009745 16S rRNA interaction site [nucleotide binding]; other site 554290009746 streptomycin interaction site [chemical binding]; other site 554290009747 23S rRNA interaction site [nucleotide binding]; other site 554290009748 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 554290009749 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 554290009750 sulfur relay protein TusC; Validated; Region: PRK00211 554290009751 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 554290009752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 554290009753 YheO-like PAS domain; Region: PAS_6; pfam08348 554290009754 HTH domain; Region: HTH_22; pfam13309 554290009755 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 554290009756 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 554290009757 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 554290009758 phi X174 lysis protein; Provisional; Region: PRK02793 554290009759 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 554290009760 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 554290009761 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 554290009762 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 554290009763 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 554290009764 TrkA-N domain; Region: TrkA_N; pfam02254 554290009765 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 554290009766 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 554290009767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290009768 Walker A/P-loop; other site 554290009769 ATP binding site [chemical binding]; other site 554290009770 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290009771 ABC transporter signature motif; other site 554290009772 Walker B; other site 554290009773 D-loop; other site 554290009774 ABC transporter; Region: ABC_tran_2; pfam12848 554290009775 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290009777 putative monooxygenase; Provisional; Region: PRK11118 554290009778 putative hydrolase; Provisional; Region: PRK10985 554290009779 hypothetical protein; Provisional; Region: PRK04966 554290009780 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 554290009781 active site 554290009782 hypothetical protein; Provisional; Region: PRK10738 554290009783 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 554290009784 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 554290009785 ligand binding site [chemical binding]; other site 554290009786 flexible hinge region; other site 554290009787 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 554290009788 putative switch regulator; other site 554290009789 non-specific DNA interactions [nucleotide binding]; other site 554290009790 DNA binding site [nucleotide binding] 554290009791 sequence specific DNA binding site [nucleotide binding]; other site 554290009792 putative cAMP binding site [chemical binding]; other site 554290009793 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 554290009794 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 554290009795 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 554290009796 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 554290009797 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 554290009798 inhibitor-cofactor binding pocket; inhibition site 554290009799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290009800 catalytic residue [active] 554290009801 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 554290009802 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 554290009803 glutamine binding [chemical binding]; other site 554290009804 catalytic triad [active] 554290009805 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 554290009806 cell filamentation protein Fic; Provisional; Region: PRK10347 554290009807 hypothetical protein; Provisional; Region: PRK10204 554290009808 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 554290009809 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 554290009810 substrate binding site [chemical binding]; other site 554290009811 putative transporter; Provisional; Region: PRK03699 554290009812 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 554290009813 putative substrate translocation pore; other site 554290009814 nitrite reductase subunit NirD; Provisional; Region: PRK14989 554290009815 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290009816 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 554290009817 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 554290009818 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 554290009819 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 554290009820 nitrite transporter NirC; Provisional; Region: PRK11562 554290009821 siroheme synthase; Provisional; Region: cysG; PRK10637 554290009822 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 554290009823 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 554290009824 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 554290009825 active site 554290009826 SAM binding site [chemical binding]; other site 554290009827 homodimer interface [polypeptide binding]; other site 554290009828 Autotransporter beta-domain; Region: Autotransporter; pfam03797 554290009830 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 554290009831 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 554290009832 active site 554290009833 HIGH motif; other site 554290009834 dimer interface [polypeptide binding]; other site 554290009835 KMSKS motif; other site 554290009836 phosphoglycolate phosphatase; Provisional; Region: PRK13222 554290009837 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 554290009838 motif II; other site 554290009839 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 554290009840 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 554290009841 substrate binding site [chemical binding]; other site 554290009842 hexamer interface [polypeptide binding]; other site 554290009843 metal binding site [ion binding]; metal-binding site 554290009844 DNA adenine methylase; Provisional; Region: PRK10904 554290009845 cell division protein DamX; Validated; Region: PRK10905 554290009846 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 554290009847 active site 554290009848 dimer interface [polypeptide binding]; other site 554290009849 metal binding site [ion binding]; metal-binding site 554290009850 shikimate kinase; Reviewed; Region: aroK; PRK00131 554290009851 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 554290009852 ADP binding site [chemical binding]; other site 554290009853 magnesium binding site [ion binding]; other site 554290009854 putative shikimate binding site; other site 554290009855 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 554290009856 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 554290009857 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 554290009858 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 554290009859 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 554290009861 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 554290009862 Transglycosylase; Region: Transgly; pfam00912 554290009863 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 554290009864 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 554290009865 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 554290009866 ADP-ribose binding site [chemical binding]; other site 554290009867 dimer interface [polypeptide binding]; other site 554290009868 active site 554290009869 nudix motif; other site 554290009870 metal binding site [ion binding]; metal-binding site 554290009871 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 554290009872 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 554290009873 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 554290009874 motif II; other site 554290009875 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 554290009876 RNA binding surface [nucleotide binding]; other site 554290009877 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 554290009878 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 554290009879 dimerization interface [polypeptide binding]; other site 554290009880 domain crossover interface; other site 554290009881 redox-dependent activation switch; other site 554290009882 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 554290009883 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 554290009884 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 554290009885 active site 554290009886 substrate-binding site [chemical binding]; other site 554290009887 metal-binding site [ion binding] 554290009888 ATP binding site [chemical binding]; other site 554290009889 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 554290009890 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 554290009891 dimerization interface [polypeptide binding]; other site 554290009892 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 554290009893 dimer interface [polypeptide binding]; other site 554290009894 phosphorylation site [posttranslational modification] 554290009895 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 554290009896 ATP binding site [chemical binding]; other site 554290009897 G-X-G motif; other site 554290009898 osmolarity response regulator; Provisional; Region: ompR; PRK09468 554290009899 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 554290009900 active site 554290009901 phosphorylation site [posttranslational modification] 554290009902 intermolecular recognition site; other site 554290009903 dimerization interface [polypeptide binding]; other site 554290009904 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 554290009905 DNA binding site [nucleotide binding] 554290009906 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 554290009907 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 554290009908 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 554290009909 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 554290009910 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 554290009911 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 554290009912 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 554290009913 RNA binding site [nucleotide binding]; other site 554290009914 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 554290009915 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 554290009916 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 554290009917 G1 box; other site 554290009918 GTP/Mg2+ binding site [chemical binding]; other site 554290009919 Switch I region; other site 554290009920 G2 box; other site 554290009921 G3 box; other site 554290009922 Switch II region; other site 554290009923 G4 box; other site 554290009924 G5 box; other site 554290009925 Nucleoside recognition; Region: Gate; pfam07670 554290009926 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 554290009927 Nucleoside recognition; Region: Gate; pfam07670 554290009928 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 554290009929 hypothetical protein; Provisional; Region: PRK09956 554290009930 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 554290009931 carboxylesterase BioH; Provisional; Region: PRK10349 554290009932 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 554290009933 DNA utilization protein GntX; Provisional; Region: PRK11595 554290009934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290009935 active site 554290009936 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 554290009937 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 554290009938 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 554290009939 high-affinity gluconate transporter; Provisional; Region: PRK14984 554290009940 gluconate transporter; Region: gntP; TIGR00791 554290009941 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 554290009942 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 554290009943 maltodextrin phosphorylase; Provisional; Region: PRK14985 554290009944 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 554290009945 homodimer interface [polypeptide binding]; other site 554290009946 active site pocket [active] 554290009947 transcriptional regulator MalT; Provisional; Region: PRK04841 554290009948 AAA ATPase domain; Region: AAA_16; pfam13191 554290009949 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 554290009950 DNA binding residues [nucleotide binding] 554290009951 dimerization interface [polypeptide binding]; other site 554290009952 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 554290009953 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290009954 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290009955 intramembrane serine protease GlpG; Provisional; Region: PRK10907 554290009956 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 554290009957 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 554290009958 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 554290009959 active site residue [active] 554290009960 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 554290009961 glycogen phosphorylase; Provisional; Region: PRK14986 554290009962 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 554290009963 homodimer interface [polypeptide binding]; other site 554290009964 active site pocket [active] 554290009965 glycogen synthase; Provisional; Region: glgA; PRK00654 554290009966 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 554290009967 ADP-binding pocket [chemical binding]; other site 554290009968 homodimer interface [polypeptide binding]; other site 554290009969 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 554290009970 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 554290009971 ligand binding site; other site 554290009972 oligomer interface; other site 554290009973 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 554290009974 dimer interface [polypeptide binding]; other site 554290009975 N-terminal domain interface [polypeptide binding]; other site 554290009976 sulfate 1 binding site; other site 554290009977 glycogen debranching enzyme; Provisional; Region: PRK03705 554290009978 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 554290009979 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 554290009980 active site 554290009981 catalytic site [active] 554290009982 glycogen branching enzyme; Provisional; Region: PRK05402 554290009983 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 554290009984 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 554290009985 active site 554290009986 catalytic site [active] 554290009987 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 554290009988 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 554290009989 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 554290009990 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290009991 low affinity gluconate transporter; Provisional; Region: PRK10472 554290009992 gluconate transporter; Region: gntP; TIGR00791 554290009993 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 554290009994 ATP-binding site [chemical binding]; other site 554290009995 Gluconate-6-phosphate binding site [chemical binding]; other site 554290009996 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 554290009997 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290009998 DNA binding site [nucleotide binding] 554290009999 domain linker motif; other site 554290010000 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 554290010001 putative ligand binding site [chemical binding]; other site 554290010002 putative dimerization interface [polypeptide binding]; other site 554290010003 Pirin-related protein [General function prediction only]; Region: COG1741 554290010004 Pirin; Region: Pirin; pfam02678 554290010006 putative acetyltransferase YhhY; Provisional; Region: PRK10140 554290010007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290010008 Coenzyme A binding pocket [chemical binding]; other site 554290010009 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290010010 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290010011 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290010012 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 554290010013 substrate binding site [chemical binding]; other site 554290010014 dimer interface [polypeptide binding]; other site 554290010015 ATP binding site [chemical binding]; other site 554290010016 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 554290010017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 554290010018 Protein of unknown function, DUF606; Region: DUF606; pfam04657 554290010019 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 554290010020 active site 554290010021 substrate binding pocket [chemical binding]; other site 554290010022 homodimer interaction site [polypeptide binding]; other site 554290010023 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 554290010024 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 554290010025 hypothetical protein; Provisional; Region: PRK10350 554290010026 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 554290010027 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 554290010028 putative active site [active] 554290010029 catalytic site [active] 554290010030 putative metal binding site [ion binding]; other site 554290010031 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 554290010032 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 554290010033 Walker A/P-loop; other site 554290010034 ATP binding site [chemical binding]; other site 554290010035 Q-loop/lid; other site 554290010036 ABC transporter signature motif; other site 554290010037 Walker B; other site 554290010038 D-loop; other site 554290010039 H-loop/switch region; other site 554290010040 TOBE domain; Region: TOBE_2; pfam08402 554290010041 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 554290010042 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 554290010043 dimer interface [polypeptide binding]; other site 554290010044 conserved gate region; other site 554290010045 ABC-ATPase subunit interface; other site 554290010046 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 554290010047 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 554290010048 putative PBP binding loops; other site 554290010049 dimer interface [polypeptide binding]; other site 554290010050 ABC-ATPase subunit interface; other site 554290010051 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 554290010052 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 554290010053 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 554290010054 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 554290010055 Walker A/P-loop; other site 554290010056 ATP binding site [chemical binding]; other site 554290010057 Q-loop/lid; other site 554290010058 ABC transporter signature motif; other site 554290010059 Walker B; other site 554290010060 D-loop; other site 554290010061 H-loop/switch region; other site 554290010062 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 554290010063 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 554290010064 Walker A/P-loop; other site 554290010065 ATP binding site [chemical binding]; other site 554290010066 Q-loop/lid; other site 554290010067 ABC transporter signature motif; other site 554290010068 Walker B; other site 554290010069 D-loop; other site 554290010070 H-loop/switch region; other site 554290010071 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 554290010072 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 554290010073 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 554290010074 TM-ABC transporter signature motif; other site 554290010075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 554290010076 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 554290010077 TM-ABC transporter signature motif; other site 554290010078 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 554290010079 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 554290010080 dimerization interface [polypeptide binding]; other site 554290010081 ligand binding site [chemical binding]; other site 554290010082 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 554290010083 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 554290010084 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 554290010085 dimerization interface [polypeptide binding]; other site 554290010086 ligand binding site [chemical binding]; other site 554290010087 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 554290010088 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 554290010089 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 554290010090 DNA binding residues [nucleotide binding] 554290010091 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 554290010092 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 554290010093 cell division protein FtsE; Provisional; Region: PRK10908 554290010094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290010095 Walker A/P-loop; other site 554290010096 ATP binding site [chemical binding]; other site 554290010097 Q-loop/lid; other site 554290010098 ABC transporter signature motif; other site 554290010099 Walker B; other site 554290010100 D-loop; other site 554290010101 H-loop/switch region; other site 554290010102 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 554290010103 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 554290010104 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 554290010105 P loop; other site 554290010106 GTP binding site [chemical binding]; other site 554290010107 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 554290010108 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 554290010109 S-adenosylmethionine binding site [chemical binding]; other site 554290010110 hypothetical protein; Provisional; Region: PRK10910 554290010111 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 554290010112 Predicted membrane protein [Function unknown]; Region: COG3714 554290010113 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 554290010114 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 554290010115 metal-binding site [ion binding] 554290010116 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 554290010117 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 554290010118 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 554290010119 dimer interface [polypeptide binding]; other site 554290010120 ligand binding site [chemical binding]; other site 554290010121 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 554290010122 dimerization interface [polypeptide binding]; other site 554290010123 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290010124 dimer interface [polypeptide binding]; other site 554290010125 putative CheW interface [polypeptide binding]; other site 554290010126 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 554290010127 CPxP motif; other site 554290010128 hypothetical protein; Provisional; Region: PRK11212 554290010129 Insertion introduced frameshift mutation. Gene is intact in Paratyphi A strain ATCC9150 (SPA3431) 554290010130 major facilitator superfamily transporter; Provisional; Region: PRK05122 554290010131 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 554290010132 putative substrate translocation pore; other site 554290010133 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 554290010134 Domain of unknown function DUF20; Region: UPF0118; pfam01594 554290010135 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 554290010136 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 554290010137 nickel responsive regulator; Provisional; Region: PRK02967 554290010138 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 554290010139 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 554290010140 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 554290010141 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 554290010142 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 554290010143 Walker A/P-loop; other site 554290010144 ATP binding site [chemical binding]; other site 554290010145 Q-loop/lid; other site 554290010146 ABC transporter signature motif; other site 554290010147 Walker B; other site 554290010148 D-loop; other site 554290010149 H-loop/switch region; other site 554290010150 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 554290010151 Walker A/P-loop; other site 554290010152 ATP binding site [chemical binding]; other site 554290010153 Q-loop/lid; other site 554290010154 ABC transporter signature motif; other site 554290010155 Walker B; other site 554290010156 D-loop; other site 554290010157 H-loop/switch region; other site 554290010158 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 554290010159 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 554290010160 HlyD family secretion protein; Region: HlyD; pfam00529 554290010161 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290010162 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290010163 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290010164 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 554290010165 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 554290010166 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 554290010167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290010168 homodimer interface [polypeptide binding]; other site 554290010169 catalytic residue [active] 554290010170 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 554290010171 homotrimer interaction site [polypeptide binding]; other site 554290010172 putative active site [active] 554290010173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 554290010174 YheO-like PAS domain; Region: PAS_6; pfam08348 554290010175 HTH domain; Region: HTH_22; pfam13309 554290010176 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 554290010177 putative substrate translocation pore; other site 554290010178 Major Facilitator Superfamily; Region: MFS_1; pfam07690 554290010179 Predicted flavoproteins [General function prediction only]; Region: COG2081 554290010180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290010181 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 554290010182 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 554290010183 universal stress protein UspB; Provisional; Region: PRK04960 554290010184 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 554290010185 Ligand Binding Site [chemical binding]; other site 554290010186 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 554290010187 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 554290010188 putative substrate translocation pore; other site 554290010189 POT family; Region: PTR2; pfam00854 554290010190 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 554290010191 S-adenosylmethionine binding site [chemical binding]; other site 554290010192 oligopeptidase A; Provisional; Region: PRK10911 554290010193 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 554290010194 active site 554290010195 Zn binding site [ion binding]; other site 554290010196 hypothetical protein; Provisional; Region: PRK10215 554290010197 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 554290010198 glutathione reductase; Validated; Region: PRK06116 554290010199 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 554290010200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290010201 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 554290010202 similar to |45505307|gb|AAS67028.1| L-aspara; Deletion of N-terminal relative to Typhimurium 554290010203 similar to Salmonella typhi CT18 phosphosugar-binding protein; C-terminal deleted relative to Typhimurium STM3601 554290010204 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 554290010205 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290010206 DNA-binding site [nucleotide binding]; DNA binding site 554290010207 UTRA domain; Region: UTRA; pfam07702 554290010208 trehalase; Provisional; Region: treF; PRK13270 554290010209 Trehalase; Region: Trehalase; pfam01204 554290010210 Phage-related lysozyme (muraminidase) [General function prediction only]; Region: COG3772 554290010211 catalytic residue [active] 554290010212 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 554290010213 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 554290010214 DNA binding residues [nucleotide binding] 554290010215 dimerization interface [polypeptide binding]; other site 554290010217 inner membrane protein YhjD; Region: TIGR00766 554290010218 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 554290010219 metabolite-proton symporter; Region: 2A0106; TIGR00883 554290010220 putative substrate translocation pore; other site 554290010222 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 554290010223 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290010224 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 554290010225 substrate binding site [chemical binding]; other site 554290010226 ATP binding site [chemical binding]; other site 554290010227 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 554290010228 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 554290010229 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 554290010230 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 554290010231 putative diguanylate cyclase; Provisional; Region: PRK13561 554290010232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290010233 metal binding site [ion binding]; metal-binding site 554290010234 active site 554290010235 I-site; other site 554290010236 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 554290010237 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 554290010238 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 554290010239 TPR motif; other site 554290010240 binding surface 554290010241 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 554290010242 TPR motif; other site 554290010243 binding surface 554290010244 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 554290010245 binding surface 554290010246 TPR motif; other site 554290010247 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 554290010248 endo-1,4-D-glucanase; Provisional; Region: PRK11097 554290010249 cellulose synthase regulator protein; Provisional; Region: PRK11114 554290010251 cell division protein; Provisional; Region: PRK10037 554290010252 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 554290010253 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 554290010254 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 554290010255 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 554290010256 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 554290010257 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 554290010259 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 554290010260 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 554290010261 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 554290010262 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290010263 Walker A/P-loop; other site 554290010264 ATP binding site [chemical binding]; other site 554290010265 Q-loop/lid; other site 554290010266 ABC transporter signature motif; other site 554290010267 Walker B; other site 554290010268 D-loop; other site 554290010269 H-loop/switch region; other site 554290010270 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 554290010271 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 554290010272 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 554290010273 Walker A/P-loop; other site 554290010274 ATP binding site [chemical binding]; other site 554290010275 Q-loop/lid; other site 554290010276 ABC transporter signature motif; other site 554290010277 Walker B; other site 554290010278 D-loop; other site 554290010279 H-loop/switch region; other site 554290010280 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 554290010281 dipeptide transporter; Provisional; Region: PRK10913 554290010282 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 554290010283 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 554290010284 dimer interface [polypeptide binding]; other site 554290010285 conserved gate region; other site 554290010286 putative PBP binding loops; other site 554290010287 ABC-ATPase subunit interface; other site 554290010288 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 554290010289 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 554290010290 dimer interface [polypeptide binding]; other site 554290010291 conserved gate region; other site 554290010292 putative PBP binding loops; other site 554290010293 ABC-ATPase subunit interface; other site 554290010294 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 554290010295 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 554290010296 peptide binding site [polypeptide binding]; other site 554290010297 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 554290010298 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 554290010299 Transcriptional regulators [Transcription]; Region: PurR; COG1609 554290010300 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290010301 DNA binding site [nucleotide binding] 554290010302 domain linker motif; other site 554290010303 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_8; cd06287 554290010304 putative dimerization interface [polypeptide binding]; other site 554290010305 putative ligand binding site [chemical binding]; other site 554290010306 phosphoethanolamine transferase; Provisional; Region: PRK11560 554290010307 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 554290010308 Sulfatase; Region: Sulfatase; pfam00884 554290010309 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 554290010310 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 554290010311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290010312 Coenzyme A binding pocket [chemical binding]; other site 554290010313 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 554290010314 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 554290010315 molybdopterin cofactor binding site [chemical binding]; other site 554290010316 substrate binding site [chemical binding]; other site 554290010317 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 554290010318 molybdopterin cofactor binding site; other site 554290010319 putative outer membrane lipoprotein; Provisional; Region: PRK10510 554290010320 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 554290010321 ligand binding site [chemical binding]; other site 554290010322 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 554290010323 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 554290010324 dimerization interface [polypeptide binding]; other site 554290010325 ligand binding site [chemical binding]; other site 554290010326 NADP binding site [chemical binding]; other site 554290010327 catalytic site [active] 554290010328 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 554290010329 Predicted transcriptional regulator [Transcription]; Region: COG2944 554290010330 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 554290010331 salt bridge; other site 554290010332 non-specific DNA binding site [nucleotide binding]; other site 554290010333 sequence-specific DNA binding site [nucleotide binding]; other site 554290010334 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 554290010335 DNA-binding site [nucleotide binding]; DNA binding site 554290010336 RNA-binding motif; other site 554290010337 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 554290010338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 554290010339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 554290010340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290010341 Coenzyme A binding pocket [chemical binding]; other site 554290010342 Integrase core domain; Region: rve; pfam00665 554290010343 Integrase core domain; Region: rve_2; pfam13333 554290010344 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 554290010345 DALR anticodon binding domain; Region: DALR_1; pfam05746 554290010346 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 554290010347 dimer interface [polypeptide binding]; other site 554290010348 motif 1; other site 554290010349 active site 554290010350 motif 2; other site 554290010351 motif 3; other site 554290010352 YsaB-like lipoprotein; Region: YsaB; pfam13983 554290010353 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 554290010354 Acyltransferase family; Region: Acyl_transf_3; pfam01757 554290010355 Predicted membrane protein [Function unknown]; Region: COG4682 554290010356 yiaA/B two helix domain; Region: YiaAB; pfam05360 554290010357 yiaA/B two helix domain; Region: YiaAB; pfam05360 554290010358 xylulokinase; Provisional; Region: PRK15027 554290010359 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 554290010360 N- and C-terminal domain interface [polypeptide binding]; other site 554290010361 active site 554290010362 MgATP binding site [chemical binding]; other site 554290010363 catalytic site [active] 554290010364 metal binding site [ion binding]; metal-binding site 554290010365 xylulose binding site [chemical binding]; other site 554290010366 homodimer interface [polypeptide binding]; other site 554290010367 similar to Salmonella typhi CT18 D-xylose isomerase; deletion in C-terminal relative to other Salmonella enterica 554290010368 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 554290010369 putative dimerization interface [polypeptide binding]; other site 554290010370 putative ligand binding site [chemical binding]; other site 554290010371 Transcriptional regulators [Transcription]; Region: PurR; COG1609 554290010372 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290010373 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290010374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290010375 hypothetical protein; Provisional; Region: PRK10356 554290010376 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 554290010377 alpha-amylase; Reviewed; Region: malS; PRK09505 554290010378 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 554290010379 active site 554290010380 catalytic site [active] 554290010381 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 554290010382 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 554290010383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290010384 homodimer interface [polypeptide binding]; other site 554290010385 catalytic residue [active] 554290010386 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 554290010387 Transcriptional regulator [Transcription]; Region: IclR; COG1414 554290010388 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 554290010389 Bacterial transcriptional regulator; Region: IclR; pfam01614 554290010390 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 554290010391 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 554290010393 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 554290010394 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 554290010395 DctM-like transporters; Region: DctM; pfam06808 554290010396 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 554290010397 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 554290010398 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 554290010399 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 554290010400 putative N- and C-terminal domain interface [polypeptide binding]; other site 554290010401 putative active site [active] 554290010402 MgATP binding site [chemical binding]; other site 554290010403 catalytic site [active] 554290010404 metal binding site [ion binding]; metal-binding site 554290010405 putative xylulose binding site [chemical binding]; other site 554290010406 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 554290010407 active site 554290010408 dimer interface [polypeptide binding]; other site 554290010409 magnesium binding site [ion binding]; other site 554290010410 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 554290010411 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 554290010412 AP (apurinic/apyrimidinic) site pocket; other site 554290010413 DNA interaction; other site 554290010414 Metal-binding active site; metal-binding site 554290010415 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 554290010416 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 554290010417 intersubunit interface [polypeptide binding]; other site 554290010418 active site 554290010419 Zn2+ binding site [ion binding]; other site 554290010420 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 554290010421 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 554290010422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290010423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 554290010424 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 554290010425 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 554290010426 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 554290010427 NAD(P) binding site [chemical binding]; other site 554290010428 catalytic residues [active] 554290010429 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 554290010430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 554290010431 nucleotide binding site [chemical binding]; other site 554290010432 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 554290010433 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 554290010434 G1 box; other site 554290010435 putative GEF interaction site [polypeptide binding]; other site 554290010436 GTP/Mg2+ binding site [chemical binding]; other site 554290010437 Switch I region; other site 554290010438 G2 box; other site 554290010439 G3 box; other site 554290010440 Switch II region; other site 554290010441 G4 box; other site 554290010442 G5 box; other site 554290010443 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 554290010444 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 554290010445 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 554290010446 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 554290010447 selenocysteine synthase; Provisional; Region: PRK04311 554290010448 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 554290010449 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 554290010450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290010451 catalytic residue [active] 554290010452 putative glutathione S-transferase; Provisional; Region: PRK10357 554290010453 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 554290010454 putative C-terminal domain interface [polypeptide binding]; other site 554290010455 putative GSH binding site (G-site) [chemical binding]; other site 554290010456 putative dimer interface [polypeptide binding]; other site 554290010457 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 554290010458 dimer interface [polypeptide binding]; other site 554290010459 N-terminal domain interface [polypeptide binding]; other site 554290010460 putative substrate binding pocket (H-site) [chemical binding]; other site 554290010461 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 554290010462 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 554290010463 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 554290010464 active site 554290010465 P-loop; other site 554290010466 phosphorylation site [posttranslational modification] 554290010467 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 554290010468 active site 554290010469 phosphorylation site [posttranslational modification] 554290010470 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 554290010471 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 554290010472 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 554290010474 hypothetical protein; Provisional; Region: PRK11020 554290010475 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 554290010477 L-lactate permease; Provisional; Region: PRK10420 554290010478 glycolate transporter; Provisional; Region: PRK09695 554290010479 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 554290010480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290010481 DNA-binding site [nucleotide binding]; DNA binding site 554290010482 FCD domain; Region: FCD; pfam07729 554290010483 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 554290010484 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 554290010485 active site 554290010486 substrate binding site [chemical binding]; other site 554290010487 FMN binding site [chemical binding]; other site 554290010488 putative catalytic residues [active] 554290010489 putative rRNA methylase; Provisional; Region: PRK10358 554290010490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 554290010491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290010492 DNA binding site [nucleotide binding] 554290010493 domain linker motif; other site 554290010494 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 554290010495 putative dimerization interface [polypeptide binding]; other site 554290010496 putative ligand binding site [chemical binding]; other site 554290010497 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 554290010498 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 554290010499 active site pocket [active] 554290010500 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 554290010501 D-galactonate transporter; Region: 2A0114; TIGR00893 554290010502 putative substrate translocation pore; other site 554290010503 serine acetyltransferase; Provisional; Region: cysE; PRK11132 554290010504 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 554290010505 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 554290010506 trimer interface [polypeptide binding]; other site 554290010507 active site 554290010508 substrate binding site [chemical binding]; other site 554290010509 CoA binding site [chemical binding]; other site 554290010510 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 554290010511 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 554290010512 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 554290010513 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 554290010514 SecA binding site; other site 554290010515 Preprotein binding site; other site 554290010516 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 554290010517 GSH binding site [chemical binding]; other site 554290010518 catalytic residues [active] 554290010519 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 554290010520 active site residue [active] 554290010521 phosphoglyceromutase; Provisional; Region: PRK05434 554290010522 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 554290010523 AmiB activator; Provisional; Region: PRK11637 554290010524 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 554290010525 Peptidase family M23; Region: Peptidase_M23; pfam01551 554290010526 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 554290010527 NodB motif; other site 554290010528 putative active site [active] 554290010529 putative catalytic site [active] 554290010530 Zn binding site [ion binding]; other site 554290010531 putative glycosyl transferase; Provisional; Region: PRK10073 554290010532 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 554290010533 active site 554290010534 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 554290010535 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 554290010536 NAD(P) binding site [chemical binding]; other site 554290010537 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 554290010538 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 554290010539 substrate-cofactor binding pocket; other site 554290010540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290010541 catalytic residue [active] 554290010542 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 554290010543 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 554290010544 NADP binding site [chemical binding]; other site 554290010545 homopentamer interface [polypeptide binding]; other site 554290010546 substrate binding site [chemical binding]; other site 554290010547 active site 554290010548 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 554290010549 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 554290010550 putative active site [active] 554290010551 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 554290010552 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 554290010553 putative active site [active] 554290010554 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 554290010555 O-antigen ligase RfaL; Provisional; Region: PRK15487 554290010556 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional; Region: PRK15484 554290010557 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 554290010558 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 554290010559 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; pfam06176 554290010560 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 554290010561 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 554290010562 Ligand binding site; other site 554290010563 metal-binding site 554290010564 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 554290010565 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 554290010566 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 554290010567 Ligand binding site; other site 554290010568 metal-binding site 554290010569 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 554290010570 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 554290010571 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 554290010572 putative ADP-binding pocket [chemical binding]; other site 554290010573 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 554290010574 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 554290010575 Ligand binding site; other site 554290010576 metal-binding site 554290010577 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 554290010578 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 554290010579 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 554290010580 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 554290010581 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 554290010582 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 554290010583 putative active site [active] 554290010584 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 554290010585 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 554290010586 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 554290010587 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 554290010588 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 554290010589 active site 554290010590 (T/H)XGH motif; other site 554290010591 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 554290010592 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 554290010593 DNA binding site [nucleotide binding] 554290010594 catalytic residue [active] 554290010595 H2TH interface [polypeptide binding]; other site 554290010596 putative catalytic residues [active] 554290010597 turnover-facilitating residue; other site 554290010598 intercalation triad [nucleotide binding]; other site 554290010599 8OG recognition residue [nucleotide binding]; other site 554290010600 putative reading head residues; other site 554290010601 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 554290010602 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 554290010603 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 554290010604 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 554290010605 hypothetical protein; Reviewed; Region: PRK00024 554290010606 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 554290010607 MPN+ (JAMM) motif; other site 554290010608 Zinc-binding site [ion binding]; other site 554290010609 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 554290010610 Flavoprotein; Region: Flavoprotein; pfam02441 554290010611 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 554290010612 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 554290010613 trimer interface [polypeptide binding]; other site 554290010614 active site 554290010615 division inhibitor protein; Provisional; Region: slmA; PRK09480 554290010616 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290010617 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 554290010618 active site 554290010619 ribonuclease PH; Reviewed; Region: rph; PRK00173 554290010620 Ribonuclease PH; Region: RNase_PH_bact; cd11362 554290010621 hexamer interface [polypeptide binding]; other site 554290010622 active site 554290010623 hypothetical protein; Provisional; Region: PRK11820 554290010624 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 554290010625 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 554290010626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290010627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290010628 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 554290010629 dimerization interface [polypeptide binding]; other site 554290010630 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 554290010631 Predicted membrane protein [Function unknown]; Region: COG2860 554290010632 UPF0126 domain; Region: UPF0126; pfam03458 554290010633 UPF0126 domain; Region: UPF0126; pfam03458 554290010634 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 554290010635 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 554290010636 nucleotide binding pocket [chemical binding]; other site 554290010637 K-X-D-G motif; other site 554290010638 catalytic site [active] 554290010639 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 554290010640 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 554290010641 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 554290010642 catalytic site [active] 554290010643 G-X2-G-X-G-K; other site 554290010644 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 554290010645 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 554290010646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 554290010647 Zn2+ binding site [ion binding]; other site 554290010648 Mg2+ binding site [ion binding]; other site 554290010649 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 554290010650 synthetase active site [active] 554290010651 NTP binding site [chemical binding]; other site 554290010652 metal binding site [ion binding]; metal-binding site 554290010653 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 554290010654 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 554290010655 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 554290010656 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 554290010657 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 554290010658 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 554290010659 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 554290010660 generic binding surface II; other site 554290010661 ssDNA binding site; other site 554290010662 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 554290010663 ATP binding site [chemical binding]; other site 554290010664 putative Mg++ binding site [ion binding]; other site 554290010665 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 554290010666 nucleotide binding region [chemical binding]; other site 554290010667 ATP-binding site [chemical binding]; other site 554290010668 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 554290010669 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 554290010670 AsmA family; Region: AsmA; pfam05170 554290010671 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 554290010673 putative transporter; Provisional; Region: PRK11462 554290010674 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 554290010675 TIGR02646 family protein; Region: TIGR02646 554290010677 Virulence protein [General function prediction only]; Region: COG3943 554290010678 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 554290010680 autotransport protein MisL; Provisional; Region: PRK15313 554290010681 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 554290010682 Autotransporter beta-domain; Region: Autotransporter; pfam03797 554290010683 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 554290010684 DNA binding site [nucleotide binding] 554290010685 Isochorismatase family; Region: Isochorismatase; pfam00857 554290010686 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 554290010687 catalytic triad [active] 554290010688 dimer interface [polypeptide binding]; other site 554290010689 conserved cis-peptide bond; other site 554290010690 magnesium-transporting ATPase; Provisional; Region: PRK15122 554290010691 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 554290010692 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 554290010693 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 554290010694 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 554290010695 motif II; other site 554290010696 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 554290010697 magnesium transport protein MgtC; Provisional; Region: PRK15385 554290010698 MgtC family; Region: MgtC; pfam02308 554290010699 EamA-like transporter family; Region: EamA; pfam00892 554290010700 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 554290010701 EamA-like transporter family; Region: EamA; pfam00892 554290010702 hypothetical protein; Provisional; Region: PRK09956 554290010703 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 554290010704 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 554290010705 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 554290010706 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 554290010707 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 554290010708 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 554290010709 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 554290010710 active site 554290010711 phosphorylation site [posttranslational modification] 554290010712 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 554290010713 active pocket/dimerization site; other site 554290010714 active site 554290010715 phosphorylation site [posttranslational modification] 554290010716 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 554290010717 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 554290010718 Walker A motif; other site 554290010719 ATP binding site [chemical binding]; other site 554290010720 Walker B motif; other site 554290010721 arginine finger; other site 554290010722 Transcriptional antiterminator [Transcription]; Region: COG3933 554290010723 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 554290010724 active site 554290010725 active pocket/dimerization site; other site 554290010726 phosphorylation site [posttranslational modification] 554290010727 PRD domain; Region: PRD; pfam00874 554290010728 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 554290010729 beta-galactosidase; Region: BGL; TIGR03356 554290010730 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 554290010731 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 554290010732 putative substrate translocation pore; other site 554290010734 Predicted transcriptional regulator [Transcription]; Region: COG2944 554290010735 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 554290010736 non-specific DNA binding site [nucleotide binding]; other site 554290010737 salt bridge; other site 554290010738 sequence-specific DNA binding site [nucleotide binding]; other site 554290010739 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 554290010740 dimerization domain swap beta strand [polypeptide binding]; other site 554290010741 regulatory protein interface [polypeptide binding]; other site 554290010742 active site 554290010743 regulatory phosphorylation site [posttranslational modification]; other site 554290010744 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 554290010745 intersubunit interface [polypeptide binding]; other site 554290010746 active site 554290010747 zinc binding site [ion binding]; other site 554290010748 Na+ binding site [ion binding]; other site 554290010749 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 554290010750 uncharacterized subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_1; cd07774 554290010751 putative N- and C-terminal domain interface [polypeptide binding]; other site 554290010752 putative active site [active] 554290010753 putative MgATP binding site [chemical binding]; other site 554290010754 catalytic site [active] 554290010755 metal binding site [ion binding]; metal-binding site 554290010756 putative carbohydrate binding site [chemical binding]; other site 554290010757 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 554290010758 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 554290010759 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 554290010760 active site 554290010761 P-loop; other site 554290010762 phosphorylation site [posttranslational modification] 554290010763 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 554290010764 active site 554290010765 phosphorylation site [posttranslational modification] 554290010766 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 554290010767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290010768 DNA-binding site [nucleotide binding]; DNA binding site 554290010769 UTRA domain; Region: UTRA; pfam07702 554290010770 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 554290010774 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 554290010775 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 554290010776 active site 554290010777 phosphorylation site [posttranslational modification] 554290010778 intermolecular recognition site; other site 554290010779 dimerization interface [polypeptide binding]; other site 554290010780 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 554290010781 DNA binding residues [nucleotide binding] 554290010782 dimerization interface [polypeptide binding]; other site 554290010783 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 554290010784 active site 554290010785 catalytic residues [active] 554290010786 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 554290010787 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 554290010788 putative substrate translocation pore; other site 554290010789 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290010790 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 554290010791 substrate binding site [chemical binding]; other site 554290010792 dimer interface [polypeptide binding]; other site 554290010793 ATP binding site [chemical binding]; other site 554290010794 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 554290010795 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 554290010796 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290010797 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 554290010798 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 554290010799 putative valine binding site [chemical binding]; other site 554290010800 dimer interface [polypeptide binding]; other site 554290010801 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 554290010802 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 554290010803 PYR/PP interface [polypeptide binding]; other site 554290010804 dimer interface [polypeptide binding]; other site 554290010805 TPP binding site [chemical binding]; other site 554290010806 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290010807 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 554290010808 TPP-binding site [chemical binding]; other site 554290010809 dimer interface [polypeptide binding]; other site 554290010810 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 554290010811 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 554290010812 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 554290010813 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 554290010814 putative substrate translocation pore; other site 554290010815 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 554290010816 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 554290010817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290010818 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 554290010819 dimerization interface [polypeptide binding]; other site 554290010820 substrate binding pocket [chemical binding]; other site 554290010821 permease DsdX; Provisional; Region: PRK09921 554290010822 gluconate transporter; Region: gntP; TIGR00791 554290010823 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 554290010824 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 554290010825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 554290010826 catalytic residue [active] 554290010827 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 554290010828 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 554290010829 Domain of unknown function (DUF202); Region: DUF202; pfam02656 554290010830 Predicted membrane protein [Function unknown]; Region: COG2149 554290010831 putative transporter; Validated; Region: PRK03818 554290010832 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 554290010833 TrkA-C domain; Region: TrkA_C; pfam02080 554290010834 TrkA-C domain; Region: TrkA_C; pfam02080 554290010835 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 554290010836 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 554290010837 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 554290010838 putative dimer interface [polypeptide binding]; other site 554290010839 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 554290010840 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 554290010841 putative dimer interface [polypeptide binding]; other site 554290010842 hypothetical protein; Provisional; Region: PRK11616 554290010843 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 554290010845 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 554290010846 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 554290010847 catalytic residues [active] 554290010848 central insert; other site 554290010849 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 554290010850 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13150 554290010851 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 554290010852 heme exporter protein CcmC; Region: ccmC; TIGR01191 554290010853 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 554290010854 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290010855 Walker A/P-loop; other site 554290010856 ATP binding site [chemical binding]; other site 554290010857 Q-loop/lid; other site 554290010858 ABC transporter signature motif; other site 554290010859 Walker B; other site 554290010860 D-loop; other site 554290010861 H-loop/switch region; other site 554290010862 Haem-binding domain; Region: Haem_bd; pfam14376 554290010863 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 554290010864 chaperone protein TorD; Validated; Region: torD; PRK04976 554290010865 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 554290010866 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 554290010867 molybdopterin cofactor binding site [chemical binding]; other site 554290010868 substrate binding site [chemical binding]; other site 554290010869 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 554290010870 molybdopterin cofactor binding site; other site 554290010871 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 554290010872 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 554290010873 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 554290010874 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 554290010875 active site 554290010876 phosphorylation site [posttranslational modification] 554290010877 intermolecular recognition site; other site 554290010878 dimerization interface [polypeptide binding]; other site 554290010879 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 554290010880 DNA binding site [nucleotide binding] 554290010881 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 554290010882 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 554290010883 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 554290010884 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 554290010885 dimer interface [polypeptide binding]; other site 554290010886 phosphorylation site [posttranslational modification] 554290010887 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 554290010888 ATP binding site [chemical binding]; other site 554290010889 Mg2+ binding site [ion binding]; other site 554290010890 G-X-G motif; other site 554290010891 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 554290010892 active site 554290010893 phosphorylation site [posttranslational modification] 554290010894 intermolecular recognition site; other site 554290010895 dimerization interface [polypeptide binding]; other site 554290010896 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 554290010897 putative binding surface; other site 554290010898 active site 554290010899 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 554290010900 D-galactonate transporter; Region: 2A0114; TIGR00893 554290010901 putative substrate translocation pore; other site 554290010902 galactonate dehydratase; Provisional; Region: PRK14017 554290010903 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 554290010904 putative active site pocket [active] 554290010905 putative metal binding site [ion binding]; other site 554290010906 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 554290010907 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 554290010908 active site 554290010909 intersubunit interface [polypeptide binding]; other site 554290010910 catalytic residue [active] 554290010911 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 554290010912 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 554290010913 Mg2+ binding site [ion binding]; other site 554290010914 G-X-G motif; other site 554290010915 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 554290010916 anchoring element; other site 554290010917 dimer interface [polypeptide binding]; other site 554290010918 ATP binding site [chemical binding]; other site 554290010919 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 554290010920 active site 554290010921 putative metal-binding site [ion binding]; other site 554290010922 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 554290010923 recF protein; Region: recf; TIGR00611 554290010924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290010925 Walker A/P-loop; other site 554290010926 ATP binding site [chemical binding]; other site 554290010927 Q-loop/lid; other site 554290010928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290010929 ABC transporter signature motif; other site 554290010930 Walker B; other site 554290010931 D-loop; other site 554290010932 H-loop/switch region; other site 554290010933 DNA polymerase III subunit beta; Validated; Region: PRK05643 554290010934 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 554290010935 putative DNA binding surface [nucleotide binding]; other site 554290010936 dimer interface [polypeptide binding]; other site 554290010937 beta-clamp/clamp loader binding surface; other site 554290010938 beta-clamp/translesion DNA polymerase binding surface; other site 554290010939 DnaA N-terminal domain; Region: DnaA_N; pfam11638 554290010940 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 554290010941 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 554290010942 Walker A motif; other site 554290010943 ATP binding site [chemical binding]; other site 554290010944 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 554290010945 Walker B motif; other site 554290010946 arginine finger; other site 554290010947 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 554290010948 DnaA box-binding interface [nucleotide binding]; other site 554290010949 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 554290010950 ribonuclease P; Reviewed; Region: rnpA; PRK01732 554290010951 hypothetical protein; Validated; Region: PRK00041 554290010952 membrane protein insertase; Provisional; Region: PRK01318 554290010953 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 554290010954 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 554290010955 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 554290010956 trmE is a tRNA modification GTPase; Region: trmE; cd04164 554290010957 G1 box; other site 554290010958 GTP/Mg2+ binding site [chemical binding]; other site 554290010959 Switch I region; other site 554290010960 G2 box; other site 554290010961 Switch II region; other site 554290010962 G3 box; other site 554290010963 G4 box; other site 554290010964 G5 box; other site 554290010965 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 554290010966 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 554290010967 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 554290010968 putative substrate translocation pore; other site 554290010969 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 554290010970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290010971 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 554290010972 substrate binding pocket [chemical binding]; other site 554290010973 dimerization interface [polypeptide binding]; other site 554290010974 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 554290010975 Predicted flavoprotein [General function prediction only]; Region: COG0431 554290010976 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 554290010977 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 554290010978 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 554290010979 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 554290010980 active site 554290010981 motif I; other site 554290010982 motif II; other site 554290010983 transcriptional regulator PhoU; Provisional; Region: PRK11115 554290010984 PhoU domain; Region: PhoU; pfam01895 554290010985 PhoU domain; Region: PhoU; pfam01895 554290010986 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 554290010987 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 554290010988 Walker A/P-loop; other site 554290010989 ATP binding site [chemical binding]; other site 554290010990 Q-loop/lid; other site 554290010991 ABC transporter signature motif; other site 554290010992 Walker B; other site 554290010993 D-loop; other site 554290010994 H-loop/switch region; other site 554290010995 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 554290010996 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 554290010997 dimer interface [polypeptide binding]; other site 554290010998 conserved gate region; other site 554290010999 putative PBP binding loops; other site 554290011000 ABC-ATPase subunit interface; other site 554290011001 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 554290011002 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 554290011003 dimer interface [polypeptide binding]; other site 554290011004 conserved gate region; other site 554290011005 putative PBP binding loops; other site 554290011006 ABC-ATPase subunit interface; other site 554290011007 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 554290011008 substrate binding pocket [chemical binding]; other site 554290011009 membrane-bound complex binding site; other site 554290011010 hinge residues; other site 554290011011 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 554290011012 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 554290011013 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 554290011014 glutaminase active site [active] 554290011015 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 554290011016 dimer interface [polypeptide binding]; other site 554290011017 active site 554290011018 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 554290011019 dimer interface [polypeptide binding]; other site 554290011020 active site 554290011021 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 554290011022 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 554290011023 Substrate binding site; other site 554290011024 Mg++ binding site; other site 554290011025 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 554290011026 active site 554290011027 substrate binding site [chemical binding]; other site 554290011028 CoA binding site [chemical binding]; other site 554290011029 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 554290011030 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 554290011031 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 554290011032 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 554290011033 gamma subunit interface [polypeptide binding]; other site 554290011034 epsilon subunit interface [polypeptide binding]; other site 554290011035 LBP interface [polypeptide binding]; other site 554290011036 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 554290011037 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 554290011038 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 554290011039 alpha subunit interaction interface [polypeptide binding]; other site 554290011040 Walker A motif; other site 554290011041 ATP binding site [chemical binding]; other site 554290011042 Walker B motif; other site 554290011043 inhibitor binding site; inhibition site 554290011044 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 554290011045 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 554290011046 core domain interface [polypeptide binding]; other site 554290011047 delta subunit interface [polypeptide binding]; other site 554290011048 epsilon subunit interface [polypeptide binding]; other site 554290011049 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 554290011050 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 554290011051 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 554290011052 beta subunit interaction interface [polypeptide binding]; other site 554290011053 Walker A motif; other site 554290011054 ATP binding site [chemical binding]; other site 554290011055 Walker B motif; other site 554290011056 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 554290011057 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 554290011058 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 554290011059 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 554290011060 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 554290011061 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 554290011062 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 554290011063 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 554290011064 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 554290011065 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 554290011066 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 554290011067 S-adenosylmethionine binding site [chemical binding]; other site 554290011068 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 554290011069 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 554290011070 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 554290011071 FMN-binding protein MioC; Provisional; Region: PRK09004 554290011072 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 554290011073 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 554290011074 putative DNA binding site [nucleotide binding]; other site 554290011075 putative Zn2+ binding site [ion binding]; other site 554290011076 AsnC family; Region: AsnC_trans_reg; pfam01037 554290011077 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 554290011078 dimer interface [polypeptide binding]; other site 554290011079 active site 554290011080 hypothetical protein; Provisional; Region: yieM; PRK10997 554290011081 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 554290011082 metal ion-dependent adhesion site (MIDAS); other site 554290011083 regulatory ATPase RavA; Provisional; Region: PRK13531 554290011084 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 554290011085 Walker A motif; other site 554290011086 ATP binding site [chemical binding]; other site 554290011087 Walker B motif; other site 554290011088 arginine finger; other site 554290011089 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 554290011090 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 554290011091 potassium uptake protein; Region: kup; TIGR00794 554290011092 D-ribose pyranase; Provisional; Region: PRK11797 554290011093 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 554290011094 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 554290011095 Walker A/P-loop; other site 554290011096 ATP binding site [chemical binding]; other site 554290011097 Q-loop/lid; other site 554290011098 ABC transporter signature motif; other site 554290011099 Walker B; other site 554290011100 D-loop; other site 554290011101 H-loop/switch region; other site 554290011102 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 554290011103 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 554290011104 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 554290011105 TM-ABC transporter signature motif; other site 554290011106 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 554290011107 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 554290011108 ligand binding site [chemical binding]; other site 554290011109 dimerization interface [polypeptide binding]; other site 554290011110 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290011111 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 554290011112 substrate binding site [chemical binding]; other site 554290011113 dimer interface [polypeptide binding]; other site 554290011114 ATP binding site [chemical binding]; other site 554290011115 transcriptional repressor RbsR; Provisional; Region: PRK10423 554290011116 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290011117 DNA binding site [nucleotide binding] 554290011118 domain linker motif; other site 554290011119 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 554290011120 dimerization interface [polypeptide binding]; other site 554290011121 ligand binding site [chemical binding]; other site 554290011122 putative transporter; Provisional; Region: PRK10504 554290011123 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 554290011124 putative substrate translocation pore; other site 554290011125 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 554290011126 Transcriptional regulators [Transcription]; Region: FadR; COG2186 554290011127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290011128 DNA-binding site [nucleotide binding]; DNA binding site 554290011129 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 554290011130 transcriptional regulator HdfR; Provisional; Region: PRK03601 554290011131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290011132 LysR substrate binding domain; Region: LysR_substrate; pfam03466 554290011133 dimerization interface [polypeptide binding]; other site 554290011134 hypothetical protein; Provisional; Region: PRK11027 554290011135 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290011136 putative ATP-dependent protease; Provisional; Region: PRK09862 554290011137 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 554290011138 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 554290011139 Walker A motif; other site 554290011140 ATP binding site [chemical binding]; other site 554290011141 Walker B motif; other site 554290011142 arginine finger; other site 554290011143 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 554290011144 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 554290011145 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 554290011146 PYR/PP interface [polypeptide binding]; other site 554290011147 dimer interface [polypeptide binding]; other site 554290011148 TPP binding site [chemical binding]; other site 554290011149 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 554290011150 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 554290011151 TPP-binding site [chemical binding]; other site 554290011152 dimer interface [polypeptide binding]; other site 554290011153 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 554290011154 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 554290011155 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 554290011156 homodimer interface [polypeptide binding]; other site 554290011157 substrate-cofactor binding pocket; other site 554290011158 catalytic residue [active] 554290011159 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 554290011160 threonine dehydratase; Reviewed; Region: PRK09224 554290011161 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 554290011162 tetramer interface [polypeptide binding]; other site 554290011163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290011164 catalytic residue [active] 554290011165 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 554290011166 putative Ile/Val binding site [chemical binding]; other site 554290011167 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 554290011168 putative Ile/Val binding site [chemical binding]; other site 554290011169 Phage-related protein [Function unknown]; Region: COG4679 554290011170 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 554290011171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290011172 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 554290011173 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 554290011174 putative dimerization interface [polypeptide binding]; other site 554290011175 ketol-acid reductoisomerase; Validated; Region: PRK05225 554290011176 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 554290011177 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 554290011178 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 554290011179 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 554290011180 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 554290011181 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 554290011182 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 554290011183 ligand binding site [chemical binding]; other site 554290011184 flexible hinge region; other site 554290011185 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 554290011186 uridine phosphorylase; Provisional; Region: PRK11178 554290011187 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 554290011188 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 554290011189 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 554290011190 Part of AAA domain; Region: AAA_19; pfam13245 554290011191 Family description; Region: UvrD_C_2; pfam13538 554290011192 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 554290011193 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 554290011194 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 554290011195 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 554290011196 ATP binding site [chemical binding]; other site 554290011197 Mg++ binding site [ion binding]; other site 554290011198 motif III; other site 554290011199 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 554290011200 nucleotide binding region [chemical binding]; other site 554290011201 ATP-binding site [chemical binding]; other site 554290011202 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 554290011203 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 554290011204 catalytic residues [active] 554290011205 transcription termination factor Rho; Provisional; Region: rho; PRK09376 554290011206 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 554290011207 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 554290011208 RNA binding site [nucleotide binding]; other site 554290011209 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 554290011210 multimer interface [polypeptide binding]; other site 554290011211 Walker A motif; other site 554290011212 ATP binding site [chemical binding]; other site 554290011213 Walker B motif; other site 554290011214 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 554290011215 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 554290011216 Mg++ binding site [ion binding]; other site 554290011217 putative catalytic motif [active] 554290011218 substrate binding site [chemical binding]; other site 554290011219 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 554290011220 Chain length determinant protein; Region: Wzz; pfam02706 554290011221 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 554290011222 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 554290011223 active site 554290011224 homodimer interface [polypeptide binding]; other site 554290011225 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 554290011226 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 554290011227 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 554290011228 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 554290011229 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 554290011230 NAD binding site [chemical binding]; other site 554290011231 substrate binding site [chemical binding]; other site 554290011232 homodimer interface [polypeptide binding]; other site 554290011233 active site 554290011234 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 554290011235 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 554290011236 substrate binding site; other site 554290011237 tetramer interface; other site 554290011238 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 554290011239 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 554290011240 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 554290011241 inhibitor-cofactor binding pocket; inhibition site 554290011242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290011243 catalytic residue [active] 554290011244 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 554290011245 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 554290011246 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 554290011247 putative common antigen polymerase; Provisional; Region: PRK02975 554290011248 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 554290011249 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 554290011250 putative transport protein YifK; Provisional; Region: PRK10746 554290011251 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 554290011252 HemY protein N-terminus; Region: HemY_N; pfam07219 554290011253 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 554290011254 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 554290011255 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 554290011256 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 554290011257 active site 554290011258 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 554290011259 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 554290011260 domain interfaces; other site 554290011261 active site 554290011262 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 554290011263 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 554290011264 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 554290011265 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 554290011266 putative iron binding site [ion binding]; other site 554290011267 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 554290011269 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 554290011270 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 554290011271 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 554290011272 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 554290011273 hypothetical protein; Provisional; Region: PRK10963 554290011274 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 554290011275 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 554290011276 active site 554290011277 Int/Topo IB signature motif; other site 554290011278 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 554290011279 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 554290011280 motif II; other site 554290011281 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 554290011282 Part of AAA domain; Region: AAA_19; pfam13245 554290011283 Family description; Region: UvrD_C_2; pfam13538 554290011284 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 554290011285 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 554290011286 Cl binding site [ion binding]; other site 554290011287 oligomer interface [polypeptide binding]; other site 554290011288 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 554290011289 EamA-like transporter family; Region: EamA; cl17759 554290011290 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 554290011291 CoenzymeA binding site [chemical binding]; other site 554290011292 subunit interaction site [polypeptide binding]; other site 554290011293 PHB binding site; other site 554290011294 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 554290011295 dimerization interface [polypeptide binding]; other site 554290011296 substrate binding site [chemical binding]; other site 554290011297 active site 554290011298 calcium binding site [ion binding]; other site 554290011299 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 554290011300 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 554290011301 ATP binding site [chemical binding]; other site 554290011302 putative Mg++ binding site [ion binding]; other site 554290011303 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 554290011304 nucleotide binding region [chemical binding]; other site 554290011305 ATP-binding site [chemical binding]; other site 554290011306 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 554290011307 Helicase and RNase D C-terminal; Region: HRDC; smart00341 554290011308 threonine efflux system; Provisional; Region: PRK10229 554290011309 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 554290011310 lysophospholipase L2; Provisional; Region: PRK10749 554290011311 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 554290011312 putative hydrolase; Provisional; Region: PRK10976 554290011313 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 554290011314 active site 554290011315 motif I; other site 554290011316 motif II; other site 554290011317 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 554290011318 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 554290011319 EamA-like transporter family; Region: EamA; pfam00892 554290011320 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 554290011321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290011322 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 554290011323 putative dimerization interface [polypeptide binding]; other site 554290011324 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 554290011325 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 554290011326 THF binding site; other site 554290011327 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 554290011328 substrate binding site [chemical binding]; other site 554290011329 THF binding site; other site 554290011330 zinc-binding site [ion binding]; other site 554290011331 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 554290011332 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 554290011333 FeS/SAM binding site; other site 554290011334 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 554290011335 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 554290011336 uridine phosphorylase; Provisional; Region: PRK11178 554290011337 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 554290011338 DNA recombination protein RmuC; Provisional; Region: PRK10361 554290011339 RmuC family; Region: RmuC; pfam02646 554290011340 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 554290011341 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 554290011342 S-adenosylmethionine binding site [chemical binding]; other site 554290011343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 554290011344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 554290011345 SCP-2 sterol transfer family; Region: SCP2; pfam02036 554290011346 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 554290011347 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 554290011348 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 554290011349 sec-independent translocase; Provisional; Region: PRK01770 554290011350 sec-independent translocase; Provisional; Region: tatB; PRK00404 554290011351 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 554290011352 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 554290011353 active site 554290011354 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 554290011355 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 554290011356 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 554290011357 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 554290011358 FMN reductase; Validated; Region: fre; PRK08051 554290011359 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 554290011360 FAD binding pocket [chemical binding]; other site 554290011361 FAD binding motif [chemical binding]; other site 554290011362 phosphate binding motif [ion binding]; other site 554290011363 beta-alpha-beta structure motif; other site 554290011364 NAD binding pocket [chemical binding]; other site 554290011366 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 554290011367 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 554290011368 dimer interface [polypeptide binding]; other site 554290011369 active site 554290011370 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 554290011371 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 554290011372 substrate binding site [chemical binding]; other site 554290011373 oxyanion hole (OAH) forming residues; other site 554290011374 trimer interface [polypeptide binding]; other site 554290011375 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 554290011376 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 554290011377 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 554290011378 proline dipeptidase; Provisional; Region: PRK13607 554290011379 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 554290011380 active site 554290011381 hypothetical protein; Provisional; Region: PRK11568 554290011382 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 554290011383 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 554290011384 potassium transporter; Provisional; Region: PRK10750 554290011385 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 554290011386 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 554290011387 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 554290011388 Walker A motif; other site 554290011389 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 554290011390 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 554290011391 GTP binding site; other site 554290011392 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 554290011393 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 554290011394 serine/threonine protein kinase; Provisional; Region: PRK11768 554290011395 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 554290011396 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 554290011397 catalytic residues [active] 554290011398 hinge region; other site 554290011399 alpha helical domain; other site 554290011400 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 554290011401 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 554290011402 putative acyl-acceptor binding pocket; other site 554290011403 DNA polymerase I; Provisional; Region: PRK05755 554290011404 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 554290011405 active site 554290011406 metal binding site 1 [ion binding]; metal-binding site 554290011407 putative 5' ssDNA interaction site; other site 554290011408 metal binding site 3; metal-binding site 554290011409 metal binding site 2 [ion binding]; metal-binding site 554290011410 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 554290011411 putative DNA binding site [nucleotide binding]; other site 554290011412 putative metal binding site [ion binding]; other site 554290011413 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 554290011414 active site 554290011415 catalytic site [active] 554290011416 substrate binding site [chemical binding]; other site 554290011417 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 554290011418 active site 554290011419 DNA binding site [nucleotide binding] 554290011420 catalytic site [active] 554290011421 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 554290011422 G1 box; other site 554290011423 GTP/Mg2+ binding site [chemical binding]; other site 554290011424 Switch I region; other site 554290011425 G2 box; other site 554290011426 G3 box; other site 554290011427 Switch II region; other site 554290011428 G4 box; other site 554290011429 G5 box; other site 554290011430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 554290011431 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 554290011432 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 554290011433 FeS/SAM binding site; other site 554290011434 HemN C-terminal domain; Region: HemN_C; pfam06969 554290011435 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 554290011436 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 554290011437 active site 554290011438 phosphorylation site [posttranslational modification] 554290011439 intermolecular recognition site; other site 554290011440 dimerization interface [polypeptide binding]; other site 554290011441 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 554290011442 Walker A motif; other site 554290011443 ATP binding site [chemical binding]; other site 554290011444 Walker B motif; other site 554290011445 arginine finger; other site 554290011446 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290011447 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 554290011448 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 554290011449 putative active site [active] 554290011450 heme pocket [chemical binding]; other site 554290011451 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 554290011452 dimer interface [polypeptide binding]; other site 554290011453 phosphorylation site [posttranslational modification] 554290011454 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 554290011455 ATP binding site [chemical binding]; other site 554290011456 Mg2+ binding site [ion binding]; other site 554290011457 G-X-G motif; other site 554290011458 glutamine synthetase; Provisional; Region: glnA; PRK09469 554290011459 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 554290011460 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 554290011461 GTP-binding protein; Provisional; Region: PRK10218 554290011462 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 554290011463 G1 box; other site 554290011464 putative GEF interaction site [polypeptide binding]; other site 554290011465 GTP/Mg2+ binding site [chemical binding]; other site 554290011466 Switch I region; other site 554290011467 G2 box; other site 554290011468 G3 box; other site 554290011469 Switch II region; other site 554290011470 G4 box; other site 554290011471 G5 box; other site 554290011472 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 554290011473 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 554290011474 similar to Salmonella typhi CT18 conserved hypothetical protein; Pseudogene due to SNP @nt202 introducing STOP codon after aa67. Not pseudogene in Paratyphi A strain ATCC9150 (SPA3851) 554290011475 coproporphyrinogen III oxidase; Validated; Region: PRK08208 554290011476 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 554290011477 FeS/SAM binding site; other site 554290011478 HemN C-terminal domain; Region: HemN_C; pfam06969 554290011479 Sulfatase; Region: Sulfatase; cl17466 554290011480 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 554290011481 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 554290011482 Leucine-rich repeats; other site 554290011483 Substrate binding site [chemical binding]; other site 554290011484 outer membrane porin L; Provisional; Region: ompL; PRK09980 554290011485 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 554290011486 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 554290011487 putative substrate translocation pore; other site 554290011488 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 554290011489 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 554290011490 alpha-glucosidase; Provisional; Region: PRK10426 554290011491 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 554290011492 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 554290011493 putative active site [active] 554290011494 putative catalytic site [active] 554290011495 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 554290011496 active site 554290011497 catalytic residues [active] 554290011498 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 554290011499 dimerization interface [polypeptide binding]; other site 554290011500 putative active cleft [active] 554290011501 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 554290011502 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 554290011503 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 554290011504 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290011505 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 554290011506 substrate binding site [chemical binding]; other site 554290011507 ATP binding site [chemical binding]; other site 554290011508 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290011509 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 554290011510 putative DNA binding site [nucleotide binding]; other site 554290011511 putative Zn2+ binding site [ion binding]; other site 554290011512 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290011513 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 554290011514 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 554290011515 motif II; other site 554290011517 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 554290011518 putative active site [active] 554290011519 dimerization interface [polypeptide binding]; other site 554290011520 putative tRNAtyr binding site [nucleotide binding]; other site 554290011521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290011522 Coenzyme A binding pocket [chemical binding]; other site 554290011523 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 554290011524 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 554290011525 non-specific DNA binding site [nucleotide binding]; other site 554290011526 salt bridge; other site 554290011527 sequence-specific DNA binding site [nucleotide binding]; other site 554290011528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 554290011529 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 554290011530 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 554290011531 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 554290011532 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 554290011533 oligomeric interface; other site 554290011534 putative active site [active] 554290011535 homodimer interface [polypeptide binding]; other site 554290011536 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 554290011537 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 554290011538 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 554290011539 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 554290011540 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 554290011541 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 554290011543 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 554290011544 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 554290011545 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 554290011546 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 554290011547 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 554290011548 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 554290011549 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 554290011550 non-specific DNA binding site [nucleotide binding]; other site 554290011551 salt bridge; other site 554290011552 sequence-specific DNA binding site [nucleotide binding]; other site 554290011553 Cupin domain; Region: Cupin_2; cl17218 554290011554 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 554290011555 lactaldehyde reductase; Region: lactal_redase; TIGR02638 554290011556 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 554290011557 dimer interface [polypeptide binding]; other site 554290011558 active site 554290011559 metal binding site [ion binding]; metal-binding site 554290011560 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 554290011561 intersubunit interface [polypeptide binding]; other site 554290011562 active site 554290011563 Zn2+ binding site [ion binding]; other site 554290011564 L-rhamnose isomerase; Provisional; Region: PRK01076 554290011565 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 554290011566 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 554290011567 N- and C-terminal domain interface [polypeptide binding]; other site 554290011568 active site 554290011569 putative catalytic site [active] 554290011570 metal binding site [ion binding]; metal-binding site 554290011571 ATP binding site [chemical binding]; other site 554290011572 rhamnulokinase; Provisional; Region: rhaB; PRK10640 554290011573 carbohydrate binding site [chemical binding]; other site 554290011574 transcriptional activator RhaS; Provisional; Region: PRK13503 554290011575 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 554290011576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290011577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290011578 transcriptional activator RhaR; Provisional; Region: PRK13502 554290011579 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 554290011580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290011581 L-rhamnose-proton symport protein (RhaT); Region: RhaT; pfam06379 554290011582 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 554290011583 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 554290011584 DctM-like transporters; Region: DctM; pfam06808 554290011585 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 554290011586 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 554290011587 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 554290011588 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 554290011589 superoxide dismutase; Provisional; Region: PRK10925 554290011590 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 554290011591 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 554290011592 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 554290011593 MOSC domain; Region: MOSC; pfam03473 554290011594 3-alpha domain; Region: 3-alpha; pfam03475 554290011595 SnoaL-like domain; Region: SnoaL_2; pfam12680 554290011596 two-component sensor protein; Provisional; Region: cpxA; PRK09470 554290011597 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 554290011598 dimerization interface [polypeptide binding]; other site 554290011599 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 554290011600 dimer interface [polypeptide binding]; other site 554290011601 phosphorylation site [posttranslational modification] 554290011602 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 554290011603 ATP binding site [chemical binding]; other site 554290011604 Mg2+ binding site [ion binding]; other site 554290011605 G-X-G motif; other site 554290011606 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 554290011607 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 554290011608 active site 554290011609 intermolecular recognition site; other site 554290011610 dimerization interface [polypeptide binding]; other site 554290011611 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 554290011612 DNA binding site [nucleotide binding] 554290011613 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 554290011614 dimer interface [polypeptide binding]; other site 554290011615 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 554290011616 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 554290011617 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 554290011618 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 554290011619 active site 554290011620 ADP/pyrophosphate binding site [chemical binding]; other site 554290011621 dimerization interface [polypeptide binding]; other site 554290011622 allosteric effector site; other site 554290011623 fructose-1,6-bisphosphate binding site; other site 554290011624 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 554290011625 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 554290011626 substrate binding pocket [chemical binding]; other site 554290011627 membrane-bound complex binding site; other site 554290011628 hinge residues; other site 554290011629 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 554290011631 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 554290011632 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 554290011633 putative substrate binding site [chemical binding]; other site 554290011634 putative ATP binding site [chemical binding]; other site 554290011635 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 554290011636 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 554290011637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290011638 DNA-binding site [nucleotide binding]; DNA binding site 554290011639 Alanine racemase, C-terminal domain; Region: Ala_racemase_C; cl08293 554290011640 UTRA domain; Region: UTRA; pfam07702 554290011641 similar to |4323058|gb|AAD16182.1| unknown [Enterobacter cloacae] N-terminal 554290011642 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 554290011643 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 554290011644 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 554290011645 putative N- and C-terminal domain interface [polypeptide binding]; other site 554290011646 putative active site [active] 554290011647 putative MgATP binding site [chemical binding]; other site 554290011648 catalytic site [active] 554290011649 metal binding site [ion binding]; metal-binding site 554290011650 putative carbohydrate binding site [chemical binding]; other site 554290011651 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 554290011652 transcriptional regulator LsrR; Provisional; Region: PRK15418 554290011653 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 554290011654 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 554290011655 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 554290011656 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 554290011657 Walker A/P-loop; other site 554290011658 ATP binding site [chemical binding]; other site 554290011659 Q-loop/lid; other site 554290011660 ABC transporter signature motif; other site 554290011661 Walker B; other site 554290011662 D-loop; other site 554290011663 H-loop/switch region; other site 554290011664 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 554290011665 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 554290011666 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 554290011667 TM-ABC transporter signature motif; other site 554290011668 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 554290011669 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 554290011670 TM-ABC transporter signature motif; other site 554290011671 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 554290011672 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 554290011673 ligand binding site [chemical binding]; other site 554290011674 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 554290011675 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 554290011676 putative active site; other site 554290011677 catalytic residue [active] 554290011678 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 554290011679 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 554290011680 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 554290011681 substrate binding site [chemical binding]; other site 554290011682 hexamer interface [polypeptide binding]; other site 554290011683 metal binding site [ion binding]; metal-binding site 554290011684 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 554290011685 triosephosphate isomerase; Provisional; Region: PRK14567 554290011686 substrate binding site [chemical binding]; other site 554290011687 dimer interface [polypeptide binding]; other site 554290011688 catalytic triad [active] 554290011689 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 554290011691 ferredoxin-NADP reductase; Provisional; Region: PRK10926 554290011692 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 554290011693 FAD binding pocket [chemical binding]; other site 554290011694 FAD binding motif [chemical binding]; other site 554290011695 phosphate binding motif [ion binding]; other site 554290011696 beta-alpha-beta structure motif; other site 554290011697 NAD binding pocket [chemical binding]; other site 554290011698 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 554290011699 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 554290011700 putative active site [active] 554290011701 glycerol kinase; Provisional; Region: glpK; PRK00047 554290011702 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 554290011703 N- and C-terminal domain interface [polypeptide binding]; other site 554290011704 active site 554290011705 MgATP binding site [chemical binding]; other site 554290011706 catalytic site [active] 554290011707 metal binding site [ion binding]; metal-binding site 554290011708 glycerol binding site [chemical binding]; other site 554290011709 homotetramer interface [polypeptide binding]; other site 554290011710 homodimer interface [polypeptide binding]; other site 554290011711 FBP binding site [chemical binding]; other site 554290011712 protein IIAGlc interface [polypeptide binding]; other site 554290011713 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 554290011714 amphipathic channel; other site 554290011715 Asn-Pro-Ala signature motifs; other site 554290011716 septal ring assembly protein ZapB; Provisional; Region: PRK15422 554290011717 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 554290011718 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 554290011719 UbiA prenyltransferase family; Region: UbiA; pfam01040 554290011720 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 554290011721 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 554290011722 Walker A motif; other site 554290011723 ATP binding site [chemical binding]; other site 554290011724 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 554290011725 Walker B motif; other site 554290011726 arginine finger; other site 554290011727 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 554290011728 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 554290011729 active site 554290011730 HslU subunit interaction site [polypeptide binding]; other site 554290011731 essential cell division protein FtsN; Provisional; Region: PRK10927 554290011732 cell division protein FtsN; Provisional; Region: PRK12757 554290011733 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290011734 DNA binding site [nucleotide binding] 554290011735 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 554290011736 domain linker motif; other site 554290011737 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 554290011738 dimerization interface [polypeptide binding]; other site 554290011739 ligand binding site [chemical binding]; other site 554290011740 primosome assembly protein PriA; Validated; Region: PRK05580 554290011741 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 554290011742 ATP binding site [chemical binding]; other site 554290011743 putative Mg++ binding site [ion binding]; other site 554290011744 helicase superfamily c-terminal domain; Region: HELICc; smart00490 554290011745 ATP-binding site [chemical binding]; other site 554290011746 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 554290011747 conserved hypothetical protein; Region: chp_urease_rgn; TIGR02117 554290011748 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 554290011749 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 554290011750 dimerization interface [polypeptide binding]; other site 554290011751 DNA binding site [nucleotide binding] 554290011752 corepressor binding sites; other site 554290011753 cystathionine gamma-synthase; Provisional; Region: PRK08045 554290011754 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 554290011755 homodimer interface [polypeptide binding]; other site 554290011756 substrate-cofactor binding pocket; other site 554290011757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290011758 catalytic residue [active] 554290011759 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 554290011760 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 554290011761 putative catalytic residues [active] 554290011762 putative nucleotide binding site [chemical binding]; other site 554290011763 putative aspartate binding site [chemical binding]; other site 554290011764 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 554290011765 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 554290011766 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 554290011767 mechanosensitive channel MscS; Provisional; Region: PRK10334 554290011768 Conserved TM helix; Region: TM_helix; pfam05552 554290011769 Mechanosensitive ion channel; Region: MS_channel; pfam00924 554290011770 Insertion element protein; Region: Ins_element1; pfam03811 554290011771 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 554290011772 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 554290011773 active site 554290011774 metal binding site [ion binding]; metal-binding site 554290011775 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 554290011777 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 554290011778 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 554290011779 active site 554290011780 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290011781 dimer interface [polypeptide binding]; other site 554290011782 substrate binding site [chemical binding]; other site 554290011783 catalytic residues [active] 554290011784 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 554290011785 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290011786 DNA-binding site [nucleotide binding]; DNA binding site 554290011787 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 554290011788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290011789 homodimer interface [polypeptide binding]; other site 554290011790 catalytic residue [active] 554290011791 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 554290011792 FAD binding site [chemical binding]; other site 554290011793 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 554290011794 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 554290011795 heme binding site [chemical binding]; other site 554290011796 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 554290011797 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 554290011798 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 554290011799 dimer interface [polypeptide binding]; other site 554290011800 active site 554290011801 metal binding site [ion binding]; metal-binding site 554290011802 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 554290011803 active site 554290011804 intersubunit interactions; other site 554290011805 catalytic residue [active] 554290011806 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 554290011807 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290011808 hypothetical protein; Provisional; Region: PRK10649 554290011809 Sulfatase; Region: Sulfatase; pfam00884 554290011810 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 554290011811 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 554290011812 acetylornithine deacetylase; Provisional; Region: PRK05111 554290011813 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 554290011814 metal binding site [ion binding]; metal-binding site 554290011815 putative dimer interface [polypeptide binding]; other site 554290011816 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 554290011817 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 554290011818 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 554290011819 nucleotide binding site [chemical binding]; other site 554290011820 N-acetyl-L-glutamate binding site [chemical binding]; other site 554290011821 argininosuccinate lyase; Provisional; Region: PRK04833 554290011822 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 554290011823 active sites [active] 554290011824 tetramer interface [polypeptide binding]; other site 554290011825 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 554290011826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290011827 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 554290011828 dimerization interface [polypeptide binding]; other site 554290011829 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 554290011830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 554290011831 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 554290011832 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 554290011833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290011834 hypothetical protein; Provisional; Region: PRK11056 554290011835 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 554290011836 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 554290011837 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 554290011838 S-adenosylmethionine binding site [chemical binding]; other site 554290011839 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 554290011840 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 554290011841 N-terminal plug; other site 554290011842 ligand-binding site [chemical binding]; other site 554290011843 glutamate racemase; Provisional; Region: PRK00865 554290011844 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 554290011845 FAD binding domain; Region: FAD_binding_4; pfam01565 554290011846 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 554290011847 Biotin operon repressor [Transcription]; Region: BirA; COG1654 554290011848 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 554290011849 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 554290011850 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 554290011851 pantothenate kinase; Provisional; Region: PRK05439 554290011852 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 554290011853 ATP-binding site [chemical binding]; other site 554290011854 CoA-binding site [chemical binding]; other site 554290011855 Mg2+-binding site [ion binding]; other site 554290011856 elongation factor Tu; Reviewed; Region: PRK00049 554290011857 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 554290011858 G1 box; other site 554290011859 GEF interaction site [polypeptide binding]; other site 554290011860 GTP/Mg2+ binding site [chemical binding]; other site 554290011861 Switch I region; other site 554290011862 G2 box; other site 554290011863 G3 box; other site 554290011864 Switch II region; other site 554290011865 G4 box; other site 554290011866 G5 box; other site 554290011867 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 554290011868 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 554290011869 Antibiotic Binding Site [chemical binding]; other site 554290011870 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 554290011871 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 554290011872 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 554290011873 putative homodimer interface [polypeptide binding]; other site 554290011874 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 554290011875 heterodimer interface [polypeptide binding]; other site 554290011876 homodimer interface [polypeptide binding]; other site 554290011877 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 554290011878 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 554290011879 23S rRNA interface [nucleotide binding]; other site 554290011880 L7/L12 interface [polypeptide binding]; other site 554290011881 putative thiostrepton binding site; other site 554290011882 L25 interface [polypeptide binding]; other site 554290011883 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 554290011884 mRNA/rRNA interface [nucleotide binding]; other site 554290011885 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 554290011886 23S rRNA interface [nucleotide binding]; other site 554290011887 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 554290011888 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 554290011889 core dimer interface [polypeptide binding]; other site 554290011890 peripheral dimer interface [polypeptide binding]; other site 554290011891 L10 interface [polypeptide binding]; other site 554290011892 L11 interface [polypeptide binding]; other site 554290011893 putative EF-Tu interaction site [polypeptide binding]; other site 554290011894 putative EF-G interaction site [polypeptide binding]; other site 554290011895 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 554290011896 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 554290011897 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 554290011898 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 554290011899 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 554290011900 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 554290011901 RPB3 interaction site [polypeptide binding]; other site 554290011902 RPB1 interaction site [polypeptide binding]; other site 554290011903 RPB11 interaction site [polypeptide binding]; other site 554290011904 RPB10 interaction site [polypeptide binding]; other site 554290011905 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 554290011906 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 554290011907 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 554290011908 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 554290011909 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 554290011910 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 554290011911 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 554290011912 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 554290011913 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 554290011914 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 554290011915 DNA binding site [nucleotide binding] 554290011916 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 554290011917 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 554290011918 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 554290011919 FeS/SAM binding site; other site 554290011920 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 554290011921 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 554290011922 ThiS interaction site; other site 554290011923 putative active site [active] 554290011924 tetramer interface [polypeptide binding]; other site 554290011925 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 554290011926 thiS-thiF/thiG interaction site; other site 554290011927 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 554290011928 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 554290011929 ATP binding site [chemical binding]; other site 554290011930 substrate interface [chemical binding]; other site 554290011931 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 554290011932 thiamine phosphate binding site [chemical binding]; other site 554290011933 active site 554290011934 pyrophosphate binding site [ion binding]; other site 554290011935 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 554290011936 ThiC-associated domain; Region: ThiC-associated; pfam13667 554290011937 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 554290011938 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 554290011939 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 554290011940 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 554290011941 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 554290011942 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 554290011943 putative NADH binding site [chemical binding]; other site 554290011944 putative active site [active] 554290011945 nudix motif; other site 554290011946 putative metal binding site [ion binding]; other site 554290011947 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 554290011948 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 554290011949 substrate binding site [chemical binding]; other site 554290011950 active site 554290011951 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 554290011952 Active_site [active] 554290011953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 554290011954 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 554290011955 IHF dimer interface [polypeptide binding]; other site 554290011956 IHF - DNA interface [nucleotide binding]; other site 554290011957 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 554290011958 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 554290011959 dimer interface [polypeptide binding]; other site 554290011960 sensor protein ZraS; Provisional; Region: PRK10364 554290011961 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 554290011962 dimer interface [polypeptide binding]; other site 554290011963 phosphorylation site [posttranslational modification] 554290011964 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 554290011965 ATP binding site [chemical binding]; other site 554290011966 Mg2+ binding site [ion binding]; other site 554290011967 G-X-G motif; other site 554290011968 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 554290011969 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 554290011970 active site 554290011971 phosphorylation site [posttranslational modification] 554290011972 intermolecular recognition site; other site 554290011973 dimerization interface [polypeptide binding]; other site 554290011974 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 554290011975 Walker A motif; other site 554290011976 ATP binding site [chemical binding]; other site 554290011977 Walker B motif; other site 554290011978 arginine finger; other site 554290011979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 554290011980 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 554290011981 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 554290011982 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 554290011983 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 554290011984 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 554290011985 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 554290011986 purine monophosphate binding site [chemical binding]; other site 554290011987 dimer interface [polypeptide binding]; other site 554290011988 putative catalytic residues [active] 554290011989 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 554290011990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 554290011991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290011992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 554290011993 Coenzyme A binding pocket [chemical binding]; other site 554290011994 homoserine O-succinyltransferase; Provisional; Region: PRK05368 554290011995 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 554290011996 proposed active site lysine [active] 554290011997 conserved cys residue [active] 554290011998 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 554290011999 malate synthase A; Region: malate_syn_A; TIGR01344 554290012000 active site 554290012001 isocitrate lyase; Provisional; Region: PRK15063 554290012002 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 554290012003 tetramer interface [polypeptide binding]; other site 554290012004 active site 554290012005 Mg2+/Mn2+ binding site [ion binding]; other site 554290012007 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 554290012008 transcriptional repressor IclR; Provisional; Region: PRK11569 554290012009 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 554290012010 Bacterial transcriptional regulator; Region: IclR; pfam01614 554290012011 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 554290012012 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 554290012013 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 554290012014 substrate binding pocket [chemical binding]; other site 554290012015 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 554290012016 B12 binding site [chemical binding]; other site 554290012017 cobalt ligand [ion binding]; other site 554290012018 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 554290012019 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 554290012020 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 554290012021 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 554290012022 active site pocket [active] 554290012023 oxyanion hole [active] 554290012024 catalytic triad [active] 554290012025 active site nucleophile [active] 554290012026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 554290012027 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 554290012028 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 554290012029 RNA binding surface [nucleotide binding]; other site 554290012030 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 554290012031 probable active site [active] 554290012032 hypothetical protein; Provisional; Region: PRK10515 554290012033 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 554290012034 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 554290012035 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290012036 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 554290012037 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 554290012038 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 554290012039 phosphate binding site [ion binding]; other site 554290012040 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 554290012041 aspartate kinase III; Validated; Region: PRK09084 554290012042 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 554290012043 nucleotide binding site [chemical binding]; other site 554290012044 substrate binding site [chemical binding]; other site 554290012045 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 554290012046 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 554290012047 dimer interface [polypeptide binding]; other site 554290012048 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 554290012049 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 554290012050 active site 554290012051 dimer interface [polypeptide binding]; other site 554290012052 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 554290012053 dimer interface [polypeptide binding]; other site 554290012054 active site 554290012055 Exopolysaccharide production protein YjbE; Region: YjbE; pfam11106 554290012056 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 554290012057 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 554290012058 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 554290012059 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 554290012060 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 554290012061 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 554290012062 dimer interface [polypeptide binding]; other site 554290012063 conserved gate region; other site 554290012064 putative PBP binding loops; other site 554290012065 ABC-ATPase subunit interface; other site 554290012066 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 554290012067 dimer interface [polypeptide binding]; other site 554290012068 conserved gate region; other site 554290012069 putative PBP binding loops; other site 554290012070 ABC-ATPase subunit interface; other site 554290012071 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 554290012072 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 554290012073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 554290012074 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 554290012075 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 554290012076 Walker A/P-loop; other site 554290012077 ATP binding site [chemical binding]; other site 554290012078 Q-loop/lid; other site 554290012079 ABC transporter signature motif; other site 554290012080 Walker B; other site 554290012081 D-loop; other site 554290012082 H-loop/switch region; other site 554290012083 TOBE domain; Region: TOBE_2; pfam08402 554290012084 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 554290012085 trimer interface; other site 554290012086 sugar binding site [chemical binding]; other site 554290012087 maltose regulon periplasmic protein; Provisional; Region: PRK10564 554290012088 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 554290012089 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 554290012090 UbiA prenyltransferase family; Region: UbiA; pfam01040 554290012091 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 554290012092 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 554290012093 putative acyl-acceptor binding pocket; other site 554290012094 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 554290012095 LexA repressor; Validated; Region: PRK00215 554290012096 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 554290012097 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 554290012098 Catalytic site [active] 554290012099 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 554290012100 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 554290012101 hypothetical protein; Provisional; Region: PRK10428 554290012102 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 554290012103 metal binding site 2 [ion binding]; metal-binding site 554290012104 putative DNA binding helix; other site 554290012105 metal binding site 1 [ion binding]; metal-binding site 554290012106 dimer interface [polypeptide binding]; other site 554290012107 structural Zn2+ binding site [ion binding]; other site 554290012108 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 554290012109 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 554290012110 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 554290012111 FMN binding site [chemical binding]; other site 554290012112 active site 554290012113 catalytic residues [active] 554290012114 substrate binding site [chemical binding]; other site 554290012115 phage shock protein G; Reviewed; Region: pspG; PRK09459 554290012116 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 554290012117 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 554290012118 NADP binding site [chemical binding]; other site 554290012119 dimer interface [polypeptide binding]; other site 554290012120 replicative DNA helicase; Provisional; Region: PRK08006 554290012121 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 554290012122 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 554290012123 Walker A motif; other site 554290012124 ATP binding site [chemical binding]; other site 554290012125 Walker B motif; other site 554290012126 DNA binding loops [nucleotide binding] 554290012127 alanine racemase; Reviewed; Region: alr; PRK00053 554290012128 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 554290012129 active site 554290012130 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 554290012131 substrate binding site [chemical binding]; other site 554290012132 catalytic residues [active] 554290012133 dimer interface [polypeptide binding]; other site 554290012134 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 554290012135 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 554290012136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290012137 homodimer interface [polypeptide binding]; other site 554290012138 catalytic residue [active] 554290012139 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 554290012140 active site 554290012141 motif I; other site 554290012142 motif II; other site 554290012143 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 554290012144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 554290012145 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 554290012146 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 554290012147 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 554290012148 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 554290012149 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 554290012150 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 554290012151 dimer interface [polypeptide binding]; other site 554290012152 ssDNA binding site [nucleotide binding]; other site 554290012153 tetramer (dimer of dimers) interface [polypeptide binding]; other site 554290012154 hypothetical protein; Validated; Region: PRK09039 554290012155 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 554290012156 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 554290012157 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 554290012158 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 554290012159 HlyD family secretion protein; Region: HlyD_3; pfam13437 554290012160 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012161 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012162 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012163 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012164 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012165 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 554290012166 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290012167 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012168 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 554290012169 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290012170 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012171 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 554290012172 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012173 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012174 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012175 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 554290012176 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012177 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012178 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012179 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012180 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012181 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012182 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290012183 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012184 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012185 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012186 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012187 Bacterial Ig-like domain (group 3); Region: Big_3_2; pfam12245 554290012188 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012189 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012190 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 554290012191 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012192 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012193 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 554290012194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 554290012195 Walker A/P-loop; other site 554290012196 ATP binding site [chemical binding]; other site 554290012197 Q-loop/lid; other site 554290012198 ABC transporter signature motif; other site 554290012199 Walker B; other site 554290012200 D-loop; other site 554290012201 H-loop/switch region; other site 554290012202 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 554290012203 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 554290012204 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 554290012205 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 554290012206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290012207 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 554290012208 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 554290012209 DNA binding residues [nucleotide binding] 554290012210 dimer interface [polypeptide binding]; other site 554290012211 [2Fe-2S] cluster binding site [ion binding]; other site 554290012212 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 554290012213 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 554290012214 putative C-terminal domain interface [polypeptide binding]; other site 554290012215 putative GSH binding site (G-site) [chemical binding]; other site 554290012216 putative dimer interface [polypeptide binding]; other site 554290012217 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 554290012218 putative N-terminal domain interface [polypeptide binding]; other site 554290012219 putative dimer interface [polypeptide binding]; other site 554290012220 putative substrate binding pocket (H-site) [chemical binding]; other site 554290012221 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 554290012222 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 554290012223 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 554290012224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 554290012225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290012226 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 554290012227 putative dimerization interface [polypeptide binding]; other site 554290012228 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 554290012229 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 554290012230 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 554290012231 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 554290012232 Na binding site [ion binding]; other site 554290012234 acetyl-CoA synthetase; Provisional; Region: PRK00174 554290012235 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 554290012236 active site 554290012237 CoA binding site [chemical binding]; other site 554290012238 acyl-activating enzyme (AAE) consensus motif; other site 554290012239 AMP binding site [chemical binding]; other site 554290012240 acetate binding site [chemical binding]; other site 554290012241 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 554290012242 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 554290012243 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 554290012244 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 554290012245 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 554290012246 heme lyase subunit NrfE; Provisional; Region: PRK10369 554290012247 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 554290012248 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 554290012249 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 554290012250 binding surface 554290012251 TPR motif; other site 554290012252 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 554290012253 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 554290012254 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 554290012255 Sel1-like repeats; Region: SEL1; smart00671 554290012256 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 554290012257 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 554290012258 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290012259 Coenzyme A binding pocket [chemical binding]; other site 554290012260 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 554290012261 dimer interface [polypeptide binding]; other site 554290012262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 554290012263 hypothetical protein; Provisional; Region: PRK10220 554290012264 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 554290012265 PhnA protein; Region: PhnA; pfam03831 554290012266 proline/glycine betaine transporter; Provisional; Region: PRK10642 554290012267 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 554290012268 putative substrate translocation pore; other site 554290012269 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 554290012270 sensor protein BasS/PmrB; Provisional; Region: PRK10755 554290012271 HAMP domain; Region: HAMP; pfam00672 554290012272 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 554290012273 dimer interface [polypeptide binding]; other site 554290012274 phosphorylation site [posttranslational modification] 554290012275 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 554290012276 ATP binding site [chemical binding]; other site 554290012277 Mg2+ binding site [ion binding]; other site 554290012278 G-X-G motif; other site 554290012279 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 554290012280 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 554290012281 active site 554290012282 phosphorylation site [posttranslational modification] 554290012283 intermolecular recognition site; other site 554290012284 dimerization interface [polypeptide binding]; other site 554290012285 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 554290012286 DNA binding site [nucleotide binding] 554290012287 putative metal dependent hydrolase; Provisional; Region: PRK11598 554290012288 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 554290012289 Sulfatase; Region: Sulfatase; pfam00884 554290012290 arginine:agmatin antiporter; Provisional; Region: PRK10644 554290012291 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 554290012292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290012293 arginine decarboxylase; Provisional; Region: PRK15029 554290012294 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 554290012295 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 554290012296 homodimer interface [polypeptide binding]; other site 554290012297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 554290012298 catalytic residue [active] 554290012299 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 554290012300 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 554290012301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290012302 alpha-galactosidase; Provisional; Region: PRK15076 554290012303 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 554290012304 NAD binding site [chemical binding]; other site 554290012305 sugar binding site [chemical binding]; other site 554290012306 divalent metal binding site [ion binding]; other site 554290012307 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 554290012308 dimer interface [polypeptide binding]; other site 554290012309 melibiose:sodium symporter; Provisional; Region: PRK10429 554290012310 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 554290012311 fumarate hydratase; Provisional; Region: PRK15389 554290012312 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 554290012313 Fumarase C-terminus; Region: Fumerase_C; pfam05683 554290012314 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 554290012315 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 554290012316 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 554290012317 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 554290012318 active site 554290012319 phosphorylation site [posttranslational modification] 554290012320 intermolecular recognition site; other site 554290012321 dimerization interface [polypeptide binding]; other site 554290012324 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 554290012325 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 554290012326 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 554290012327 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 554290012328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 554290012329 SdiA-regulated; Region: SdiA-regulated; cd09971 554290012330 putative active site [active] 554290012331 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 554290012332 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 554290012333 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 554290012334 DNA binding residues [nucleotide binding] 554290012335 dimerization interface [polypeptide binding]; other site 554290012336 AraC family transcriptional regulator; Provisional; Region: PRK15186 554290012337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290012338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 554290012339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290012340 Coenzyme A binding pocket [chemical binding]; other site 554290012341 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 554290012342 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 554290012343 active site 554290012344 putative transcriptional regulator; Provisional; Region: PRK11640 554290012345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 554290012346 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 554290012347 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 554290012348 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 554290012349 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 554290012350 DsbD alpha interface [polypeptide binding]; other site 554290012351 catalytic residues [active] 554290012352 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 554290012353 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 554290012354 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 554290012355 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 554290012356 Aspartase; Region: Aspartase; cd01357 554290012357 active sites [active] 554290012358 tetramer interface [polypeptide binding]; other site 554290012359 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 554290012360 putative transporter; Provisional; Region: PRK11021 554290012361 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 554290012362 oligomerisation interface [polypeptide binding]; other site 554290012363 mobile loop; other site 554290012364 roof hairpin; other site 554290012365 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 554290012366 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 554290012367 ring oligomerisation interface [polypeptide binding]; other site 554290012368 ATP/Mg binding site [chemical binding]; other site 554290012369 stacking interactions; other site 554290012370 hinge regions; other site 554290012371 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 554290012372 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 554290012373 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 554290012374 FeS/SAM binding site; other site 554290012375 elongation factor P; Validated; Region: PRK00529 554290012376 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 554290012377 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 554290012378 RNA binding site [nucleotide binding]; other site 554290012379 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 554290012380 RNA binding site [nucleotide binding]; other site 554290012381 Predicted small secreted protein [Function unknown]; Region: COG5510 554290012382 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 554290012383 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 554290012384 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 554290012385 DNA binding residues [nucleotide binding] 554290012386 dimerization interface [polypeptide binding]; other site 554290012387 multidrug efflux system protein; Provisional; Region: PRK11431 554290012388 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 554290012389 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 554290012390 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 554290012391 Iron-sulfur protein interface; other site 554290012392 proximal quinone binding site [chemical binding]; other site 554290012393 C-subunit interface; other site 554290012394 distal quinone binding site; other site 554290012395 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 554290012396 D-subunit interface [polypeptide binding]; other site 554290012397 Iron-sulfur protein interface; other site 554290012398 proximal quinone binding site [chemical binding]; other site 554290012399 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 554290012400 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 554290012401 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 554290012402 L-aspartate oxidase; Provisional; Region: PRK06175 554290012403 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 554290012404 poxB regulator PoxA; Provisional; Region: PRK09350 554290012405 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 554290012406 motif 1; other site 554290012407 dimer interface [polypeptide binding]; other site 554290012408 active site 554290012409 motif 2; other site 554290012410 motif 3; other site 554290012411 inner membrane transporter YjeM; Provisional; Region: PRK15238 554290012413 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 554290012414 GTPase RsgA; Reviewed; Region: PRK12288 554290012415 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 554290012416 RNA binding site [nucleotide binding]; other site 554290012417 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 554290012418 GTPase/Zn-binding domain interface [polypeptide binding]; other site 554290012419 GTP/Mg2+ binding site [chemical binding]; other site 554290012420 G4 box; other site 554290012421 G5 box; other site 554290012422 G1 box; other site 554290012423 Switch I region; other site 554290012424 G2 box; other site 554290012425 G3 box; other site 554290012426 Switch II region; other site 554290012427 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 554290012428 catalytic site [active] 554290012429 putative active site [active] 554290012430 putative substrate binding site [chemical binding]; other site 554290012431 dimer interface [polypeptide binding]; other site 554290012432 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 554290012433 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 554290012434 substrate binding pocket [chemical binding]; other site 554290012435 membrane-bound complex binding site; other site 554290012436 hinge residues; other site 554290012437 epoxyqueuosine reductase; Region: TIGR00276 554290012438 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 554290012439 putative carbohydrate kinase; Provisional; Region: PRK10565 554290012440 Uncharacterized conserved protein [Function unknown]; Region: COG0062 554290012441 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 554290012442 putative substrate binding site [chemical binding]; other site 554290012443 putative ATP binding site [chemical binding]; other site 554290012444 ADP-binding protein; Provisional; Region: PRK10646 554290012445 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 554290012446 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 554290012447 active site 554290012448 metal binding site [ion binding]; metal-binding site 554290012449 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 554290012450 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 554290012451 ATP binding site [chemical binding]; other site 554290012452 Mg2+ binding site [ion binding]; other site 554290012453 G-X-G motif; other site 554290012454 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 554290012455 ATP binding site [chemical binding]; other site 554290012456 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 554290012457 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 554290012458 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 554290012459 bacterial Hfq-like; Region: Hfq; cd01716 554290012460 hexamer interface [polypeptide binding]; other site 554290012461 Sm1 motif; other site 554290012462 RNA binding site [nucleotide binding]; other site 554290012463 Sm2 motif; other site 554290012464 GTPase HflX; Provisional; Region: PRK11058 554290012465 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 554290012466 HflX GTPase family; Region: HflX; cd01878 554290012467 G1 box; other site 554290012468 GTP/Mg2+ binding site [chemical binding]; other site 554290012469 Switch I region; other site 554290012470 G2 box; other site 554290012471 G3 box; other site 554290012472 Switch II region; other site 554290012473 G4 box; other site 554290012474 G5 box; other site 554290012475 FtsH protease regulator HflK; Provisional; Region: PRK10930 554290012476 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 554290012477 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 554290012478 FtsH protease regulator HflC; Provisional; Region: PRK11029 554290012479 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 554290012480 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 554290012481 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 554290012482 GDP-binding site [chemical binding]; other site 554290012483 ACT binding site; other site 554290012484 IMP binding site; other site 554290012485 Predicted transcriptional regulator [Transcription]; Region: COG1959 554290012486 transcriptional repressor NsrR; Provisional; Region: PRK11014 554290012487 exoribonuclease R; Provisional; Region: PRK11642 554290012488 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 554290012489 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 554290012490 RNB domain; Region: RNB; pfam00773 554290012491 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 554290012492 RNA binding site [nucleotide binding]; other site 554290012493 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 554290012494 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 554290012495 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 554290012496 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 554290012497 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 554290012498 Interrupted CDS 554290012499 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 554290012500 Predicted membrane protein [Function unknown]; Region: COG3766 554290012501 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 554290012502 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 554290012503 Predicted integral membrane protein [Function unknown]; Region: COG5463 554290012504 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 554290012505 'Inactivated by internal deletion, but CDS is intact in Paratyphi A strain ATCC9150' 554290012506 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290012507 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 554290012508 esterase; Provisional; Region: PRK10566 554290012509 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 554290012510 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 554290012511 transcriptional repressor UlaR; Provisional; Region: PRK13509 554290012512 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 554290012513 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 554290012514 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 554290012515 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 554290012516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 554290012517 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 554290012518 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 554290012519 active site 554290012520 P-loop; other site 554290012521 phosphorylation site [posttranslational modification] 554290012522 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 554290012523 active site 554290012524 phosphorylation site [posttranslational modification] 554290012525 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 554290012526 active site 554290012527 dimer interface [polypeptide binding]; other site 554290012528 magnesium binding site [ion binding]; other site 554290012529 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 554290012530 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 554290012531 AP (apurinic/apyrimidinic) site pocket; other site 554290012532 DNA interaction; other site 554290012533 Metal-binding active site; metal-binding site 554290012534 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 554290012535 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 554290012536 intersubunit interface [polypeptide binding]; other site 554290012537 active site 554290012538 Zn2+ binding site [ion binding]; other site 554290012539 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 554290012540 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 554290012541 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 554290012542 dimer interface [polypeptide binding]; other site 554290012543 ssDNA binding site [nucleotide binding]; other site 554290012544 tetramer (dimer of dimers) interface [polypeptide binding]; other site 554290012545 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 554290012546 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 554290012547 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 554290012548 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 554290012549 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 554290012550 EamA-like transporter family; Region: EamA; pfam00892 554290012551 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 554290012552 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 554290012553 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 554290012554 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 554290012555 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 554290012556 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 554290012557 DKNYY family; Region: DKNYY; pfam13644 554290012559 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 554290012560 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 554290012561 Hemerythrin-like domain; Region: Hr-like; cd12108 554290012562 Fe binding site [ion binding]; other site 554290012563 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 554290012564 EamA-like transporter family; Region: EamA; pfam00892 554290012565 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 554290012566 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 554290012567 NADP binding site [chemical binding]; other site 554290012568 Predicted transcriptional regulators [Transcription]; Region: COG1733 554290012569 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 554290012570 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 554290012571 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 554290012572 active site 554290012573 metal binding site [ion binding]; metal-binding site 554290012574 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 554290012575 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 554290012576 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 554290012577 active site 554290012578 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 554290012579 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 554290012580 Transposase IS200 like; Region: Y1_Tnp; pfam01797 554290012581 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 554290012582 Domain of unknown function DUF21; Region: DUF21; pfam01595 554290012583 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 554290012584 Transporter associated domain; Region: CorC_HlyC; smart01091 554290012585 methionine sulfoxide reductase A; Provisional; Region: PRK00058 554290012586 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 554290012587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 554290012588 Surface antigen; Region: Bac_surface_Ag; pfam01103 554290012589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 554290012590 Family of unknown function (DUF490); Region: DUF490; pfam04357 554290012591 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 554290012592 putative active site pocket [active] 554290012593 dimerization interface [polypeptide binding]; other site 554290012594 putative catalytic residue [active] 554290012595 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 554290012596 D-galactonate transporter; Region: 2A0114; TIGR00893 554290012597 putative substrate translocation pore; other site 554290012598 putative metallo-dependent hydrolase; Provisional; Region: PRK12394 554290012599 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 554290012600 active site 554290012601 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 554290012602 dimer interface [polypeptide binding]; other site 554290012603 substrate binding site [chemical binding]; other site 554290012604 metal binding sites [ion binding]; metal-binding site 554290012605 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 554290012606 AMP binding site [chemical binding]; other site 554290012607 metal binding site [ion binding]; metal-binding site 554290012608 active site 554290012610 hypothetical protein; Provisional; Region: PRK05255 554290012611 peptidase PmbA; Provisional; Region: PRK11040 554290012612 cytochrome b562; Provisional; Region: PRK15058 554290012613 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 554290012614 conserved hypothetical protein EF_0830/AHA_3911; Region: EF_0830; TIGR03577 554290012615 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 554290012616 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 554290012617 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 554290012618 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 554290012619 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 554290012620 active site 554290012621 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 554290012622 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 554290012623 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 554290012624 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 554290012625 HTH domain; Region: HTH_11; pfam08279 554290012626 Mga helix-turn-helix domain; Region: Mga; pfam05043 554290012627 PRD domain; Region: PRD; pfam00874 554290012628 PRD domain; Region: PRD; pfam00874 554290012629 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 554290012630 active site 554290012631 P-loop; other site 554290012632 phosphorylation site [posttranslational modification] 554290012633 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 554290012634 active site 554290012635 phosphorylation site [posttranslational modification] 554290012636 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 554290012637 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 554290012638 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 554290012639 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 554290012640 FeS/SAM binding site; other site 554290012641 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 554290012642 ATP cone domain; Region: ATP-cone; pfam03477 554290012643 Class III ribonucleotide reductase; Region: RNR_III; cd01675 554290012644 effector binding site; other site 554290012645 active site 554290012646 Zn binding site [ion binding]; other site 554290012647 glycine loop; other site 554290012648 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 554290012649 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 554290012650 Ca binding site [ion binding]; other site 554290012651 active site 554290012652 catalytic site [active] 554290012653 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 554290012654 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 554290012655 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 554290012656 active site turn [active] 554290012657 phosphorylation site [posttranslational modification] 554290012658 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 554290012659 trehalose repressor; Provisional; Region: treR; PRK09492 554290012660 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290012661 DNA binding site [nucleotide binding] 554290012662 domain linker motif; other site 554290012663 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 554290012664 dimerization interface [polypeptide binding]; other site 554290012665 ligand binding site [chemical binding]; other site 554290012667 Transposase; Region: HTH_Tnp_1; cl17663 554290012668 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 554290012669 homotrimer interaction site [polypeptide binding]; other site 554290012670 putative active site [active] 554290012671 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 554290012672 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 554290012673 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 554290012674 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 554290012675 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 554290012676 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 554290012677 pyrBI operon leader peptide; Provisional; Region: PRK10224 554290012678 Arginine repressor [Transcription]; Region: ArgR; COG1438 554290012679 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 554290012680 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 554290012681 Predicted membrane protein [Function unknown]; Region: COG1288 554290012682 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 554290012683 ornithine carbamoyltransferase; Validated; Region: PRK02102 554290012684 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 554290012685 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 554290012686 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 554290012687 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 554290012688 putative substrate binding site [chemical binding]; other site 554290012689 nucleotide binding site [chemical binding]; other site 554290012690 nucleotide binding site [chemical binding]; other site 554290012691 homodimer interface [polypeptide binding]; other site 554290012692 arginine deiminase; Provisional; Region: PRK01388 554290012693 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 554290012694 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 554290012695 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 554290012696 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 554290012697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 554290012698 RNase E inhibitor protein; Provisional; Region: PRK11191 554290012699 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 554290012700 active site 554290012701 dinuclear metal binding site [ion binding]; other site 554290012702 dimerization interface [polypeptide binding]; other site 554290012703 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 554290012704 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 554290012705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290012706 Coenzyme A binding pocket [chemical binding]; other site 554290012707 Predicted membrane protein [Function unknown]; Region: COG4269 554290012708 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 554290012709 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 554290012710 HIGH motif; other site 554290012711 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 554290012712 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 554290012713 active site 554290012714 KMSKS motif; other site 554290012715 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 554290012716 tRNA binding surface [nucleotide binding]; other site 554290012717 anticodon binding site; other site 554290012718 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 554290012719 DNA polymerase III subunit chi; Validated; Region: PRK05728 554290012720 multifunctional aminopeptidase A; Provisional; Region: PRK00913 554290012721 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 554290012722 interface (dimer of trimers) [polypeptide binding]; other site 554290012723 Substrate-binding/catalytic site; other site 554290012724 Zn-binding sites [ion binding]; other site 554290012725 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 554290012726 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 554290012727 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 554290012728 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 554290012729 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 554290012730 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 554290012731 DNA binding site [nucleotide binding] 554290012732 domain linker motif; other site 554290012733 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 554290012734 putative dimerization interface [polypeptide binding]; other site 554290012735 putative ligand binding site [chemical binding]; other site 554290012736 gluconate transporter; Region: gntP; TIGR00791 554290012737 fructuronate transporter; Provisional; Region: PRK10034; cl15264 554290012738 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 554290012739 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 554290012740 NADP binding site [chemical binding]; other site 554290012741 homodimer interface [polypeptide binding]; other site 554290012742 active site 554290012743 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 554290012744 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 554290012745 putative NAD(P) binding site [chemical binding]; other site 554290012746 catalytic Zn binding site [ion binding]; other site 554290012747 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 554290012748 ATP-binding site [chemical binding]; other site 554290012749 Gluconate-6-phosphate binding site [chemical binding]; other site 554290012750 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 554290012751 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 554290012752 putative NAD(P) binding site [chemical binding]; other site 554290012753 putative substrate binding site [chemical binding]; other site 554290012754 catalytic Zn binding site [ion binding]; other site 554290012755 structural Zn binding site [ion binding]; other site 554290012756 dimer interface [polypeptide binding]; other site 554290012757 integrase; Provisional; Region: PRK09692 554290012758 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 554290012759 active site 554290012760 Int/Topo IB signature motif; other site 554290012761 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 554290012762 DNA methylase; Region: N6_N4_Mtase; pfam01555 554290012763 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 554290012764 non-specific DNA binding site [nucleotide binding]; other site 554290012765 salt bridge; other site 554290012766 sequence-specific DNA binding site [nucleotide binding]; other site 554290012767 Restriction endonuclease PvuII; Region: Endonuc-PvuII; pfam09225 554290012768 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 554290012769 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 554290012770 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 554290012771 Ash protein family; Region: Phage_ASH; pfam10554 554290012772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 554290012773 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 554290012774 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 554290012775 active site 554290012776 metal binding site [ion binding]; metal-binding site 554290012777 interdomain interaction site; other site 554290012778 D5 N terminal like; Region: D5_N; smart00885 554290012779 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 554290012780 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 554290012781 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 554290012784 fimbrial protein SefA; Provisional; Region: PRK15228 554290012785 putative fimbrial chaperone protein SefB; Provisional; Region: PRK15233 554290012786 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290012787 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290012788 outer membrane fimbrial usher protein SefC; Provisional; Region: PRK15235 554290012789 PapC N-terminal domain; Region: PapC_N; pfam13954 554290012790 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290012791 PapC C-terminal domain; Region: PapC_C; pfam13953 554290012792 'Similar to sefD, identified in Salmonella enterica serovar Enteritidis. Interrupted by frameshift in Paratyphi A.' 554290012794 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 554290012795 DNA binding residues [nucleotide binding] 554290012796 dimerization interface [polypeptide binding]; other site 554290012797 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 554290012798 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 554290012799 catalytic residues [active] 554290012800 hinge region; other site 554290012801 alpha helical domain; other site 554290012802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 554290012803 SdiA-regulated; Region: SdiA-regulated; cd09971 554290012804 putative active site [active] 554290012805 Transposase; Region: HTH_Tnp_1; pfam01527 554290012806 HTH-like domain; Region: HTH_21; pfam13276 554290012807 Integrase core domain; Region: rve; pfam00665 554290012808 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 554290012809 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 554290012810 ATP binding site [chemical binding]; other site 554290012811 putative Mg++ binding site [ion binding]; other site 554290012812 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 554290012813 nucleotide binding region [chemical binding]; other site 554290012814 ATP-binding site [chemical binding]; other site 554290012815 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 554290012816 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 554290012817 HNH endonuclease; Region: HNH_2; pfam13391 554290012819 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 554290012820 hypothetical protein; Provisional; Region: PRK12378 554290012821 Methyltransferase domain; Region: Methyltransf_23; pfam13489 554290012822 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 554290012823 S-adenosylmethionine binding site [chemical binding]; other site 554290012824 Methyltransferase domain; Region: Methyltransf_31; pfam13847 554290012825 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 554290012826 S-adenosylmethionine binding site [chemical binding]; other site 554290012827 hypothetical protein; Provisional; Region: PRK13687 554290012828 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 554290012829 Uncharacterized conserved protein [Function unknown]; Region: COG3439 554290012830 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 554290012831 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 554290012832 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 554290012833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 554290012834 DNA-binding site [nucleotide binding]; DNA binding site 554290012835 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 554290012836 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 554290012837 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 554290012838 active site 554290012839 HIGH motif; other site 554290012840 dimer interface [polypeptide binding]; other site 554290012841 KMSKS motif; other site 554290012842 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 554290012843 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 554290012844 aspartate racemase; Region: asp_race; TIGR00035 554290012845 cell density-dependent motility repressor; Provisional; Region: PRK10082 554290012846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 554290012847 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 554290012848 dimerization interface [polypeptide binding]; other site 554290012849 isoaspartyl dipeptidase; Provisional; Region: PRK10657 554290012850 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 554290012851 active site 554290012852 hypothetical protein; Provisional; Region: PRK10519 554290012853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 554290012854 Nucleoside recognition; Region: Gate; pfam07670 554290012855 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 554290012856 Predicted membrane protein [Function unknown]; Region: COG2733 554290012858 putative transposase; Provisional; Region: PRK09857 554290012859 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 554290012860 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 554290012861 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 554290012862 NAD(P) binding site [chemical binding]; other site 554290012863 catalytic residues [active] 554290012864 endoribonuclease SymE; Provisional; Region: PRK13605 554290012865 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 554290012866 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 554290012867 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 554290012868 HsdM N-terminal domain; Region: HsdM_N; pfam12161 554290012869 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 554290012870 Methyltransferase domain; Region: Methyltransf_26; pfam13659 554290012871 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 554290012872 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 554290012873 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 554290012874 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 554290012875 ATP binding site [chemical binding]; other site 554290012876 putative Mg++ binding site [ion binding]; other site 554290012877 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 554290012878 Mrr N-terminal domain; Region: Mrr_N; pfam14338 554290012879 Restriction endonuclease; Region: Mrr_cat; pfam04471 554290012880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 554290012881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 554290012882 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 554290012883 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 554290012884 P-loop, Walker A motif; other site 554290012885 Base recognition motif; other site 554290012886 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 554290012887 Uncharacterized small protein [Function unknown]; Region: COG2879 554290012888 carbon starvation protein A; Provisional; Region: PRK15015 554290012889 Carbon starvation protein CstA; Region: CstA; pfam02554 554290012890 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 554290012891 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 554290012892 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 554290012893 dimer interface [polypeptide binding]; other site 554290012894 ligand binding site [chemical binding]; other site 554290012895 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 554290012896 dimerization interface [polypeptide binding]; other site 554290012897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 554290012898 dimer interface [polypeptide binding]; other site 554290012899 putative CheW interface [polypeptide binding]; other site 554290012900 phosphoglycerol transferase I; Provisional; Region: PRK03776 554290012901 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 554290012902 hypothetical protein; Provisional; Region: PRK11667 554290012903 DNA replication protein DnaC; Validated; Region: PRK07952 554290012904 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 554290012905 Walker A motif; other site 554290012906 ATP binding site [chemical binding]; other site 554290012907 Walker B motif; other site 554290012908 primosomal protein DnaI; Provisional; Region: PRK02854 554290012909 hypothetical protein; Provisional; Region: PRK09917 554290012910 Uncharacterized conserved protein [Function unknown]; Region: COG2966 554290012911 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 554290012912 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 554290012913 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 554290012914 DNA binding residues [nucleotide binding] 554290012915 dimerization interface [polypeptide binding]; other site 554290012916 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 554290012917 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 554290012918 DNA binding residues [nucleotide binding] 554290012919 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 554290012920 putative deacylase active site [active] 554290012921 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 554290012922 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 554290012923 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 554290012924 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 554290012925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 554290012926 metal binding site [ion binding]; metal-binding site 554290012927 active site 554290012928 I-site; other site 554290012929 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 554290012930 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 554290012931 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 554290012932 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 554290012933 S-adenosylmethionine binding site [chemical binding]; other site 554290012934 DNA polymerase III subunit psi; Validated; Region: PRK06856 554290012935 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 554290012936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 554290012937 Coenzyme A binding pocket [chemical binding]; other site 554290012938 dUMP phosphatase; Provisional; Region: PRK09449 554290012939 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 554290012940 motif II; other site 554290012941 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 554290012942 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 554290012943 G1 box; other site 554290012944 putative GEF interaction site [polypeptide binding]; other site 554290012945 GTP/Mg2+ binding site [chemical binding]; other site 554290012946 Switch I region; other site 554290012947 G2 box; other site 554290012948 G3 box; other site 554290012949 Switch II region; other site 554290012950 G4 box; other site 554290012951 G5 box; other site 554290012952 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 554290012953 periplasmic protein; Provisional; Region: PRK10568 554290012954 BON domain; Region: BON; pfam04972 554290012955 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 554290012956 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 554290012957 active site 554290012958 nucleophile elbow; other site 554290012959 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 554290012960 active site 554290012961 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 554290012962 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 554290012963 FeS/SAM binding site; other site 554290012964 hypothetical protein; Provisional; Region: PRK10977 554290012965 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 554290012966 intersubunit interface [polypeptide binding]; other site 554290012967 active site 554290012968 catalytic residue [active] 554290012969 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 554290012970 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 554290012971 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 554290012972 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 554290012973 phosphopentomutase; Provisional; Region: PRK05362 554290012974 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 554290012975 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 554290012976 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 554290012977 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 554290012978 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 554290012979 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 554290012980 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 554290012981 hypothetical protein; Provisional; Region: PRK11246 554290012982 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 554290012983 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 554290012984 motif II; other site 554290012985 DNA repair protein RadA; Region: sms; TIGR00416 554290012986 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 554290012987 Walker A motif/ATP binding site; other site 554290012988 ATP binding site [chemical binding]; other site 554290012989 Walker B motif; other site 554290012990 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 554290012991 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 554290012992 non-specific DNA binding site [nucleotide binding]; other site 554290012993 salt bridge; other site 554290012994 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 554290012995 sequence-specific DNA binding site [nucleotide binding]; other site 554290012996 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 554290012997 active site 554290012998 (T/H)XGH motif; other site 554290012999 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 554290013000 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 554290013001 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290013002 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290013003 ABC transporter; Region: ABC_tran_2; pfam12848 554290013004 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 554290013005 lytic murein transglycosylase; Provisional; Region: PRK11619 554290013006 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 554290013007 N-acetyl-D-glucosamine binding site [chemical binding]; other site 554290013008 catalytic residue [active] 554290013009 Trp operon repressor; Provisional; Region: PRK01381 554290013010 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 554290013011 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 554290013012 catalytic core [active] 554290013013 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 554290013014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 554290013015 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 554290013016 hypothetical protein; Provisional; Region: PRK10756 554290013017 CreA protein; Region: CreA; pfam05981 554290013018 DNA-binding response regulator CreB; Provisional; Region: PRK11083 554290013019 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 554290013020 active site 554290013021 phosphorylation site [posttranslational modification] 554290013022 intermolecular recognition site; other site 554290013023 dimerization interface [polypeptide binding]; other site 554290013024 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 554290013025 DNA binding site [nucleotide binding] 554290013026 sensory histidine kinase CreC; Provisional; Region: PRK11100 554290013027 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 554290013028 dimerization interface [polypeptide binding]; other site 554290013029 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 554290013030 dimer interface [polypeptide binding]; other site 554290013031 phosphorylation site [posttranslational modification] 554290013032 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 554290013033 ATP binding site [chemical binding]; other site 554290013034 Mg2+ binding site [ion binding]; other site 554290013035 G-X-G motif; other site 554290013036 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 554290013037 putative major fimbrial protein SthE; Provisional; Region: PRK15292 554290013038 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 554290013039 putative fimbrial protein SthD; Provisional; Region: PRK15293 554290013040 putative fimbrial outer membrane usher protein SthC; Provisional; Region: PRK15294 554290013041 PapC N-terminal domain; Region: PapC_N; pfam13954 554290013042 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 554290013043 PapC C-terminal domain; Region: PapC_C; pfam13953 554290013044 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 554290013045 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 554290013046 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 554290013047 putative fimbrial protein SthA; Provisional; Region: PRK15296 554290013048 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 554290013049 Helix-turn-helix domain; Region: HTH_36; pfam13730 554290013051 two-component response regulator; Provisional; Region: PRK11173 554290013052 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 554290013053 active site 554290013054 phosphorylation site [posttranslational modification] 554290013055 intermolecular recognition site; other site 554290013056 dimerization interface [polypeptide binding]; other site 554290013057 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 554290013058 DNA binding site [nucleotide binding] 554290013059 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 554290013060 putative RNA methyltransferase; Provisional; Region: PRK10433