-- dump date 20140619_082854 -- class Genbank::misc_feature -- table misc_feature_note -- id note 316407000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 316407000002 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 316407000003 putative catalytic residues [active] 316407000004 putative nucleotide binding site [chemical binding]; other site 316407000005 putative aspartate binding site [chemical binding]; other site 316407000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 316407000007 dimer interface [polypeptide binding]; other site 316407000008 putative threonine allosteric regulatory site; other site 316407000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 316407000010 putative threonine allosteric regulatory site; other site 316407000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316407000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316407000013 homoserine kinase; Region: thrB; TIGR00191 316407000014 Protein of unknown function; Region: YhfT; pfam10797 316407000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 316407000016 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 316407000017 threonine synthase; Validated; Region: PRK09225 316407000018 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 316407000019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407000020 catalytic residue [active] 316407000021 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 316407000022 hypothetical protein; Validated; Region: PRK02101 316407000023 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 316407000024 transaldolase-like protein; Provisional; Region: PTZ00411 316407000025 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 316407000026 active site 316407000027 dimer interface [polypeptide binding]; other site 316407000028 catalytic residue [active] 316407000029 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 316407000030 MPT binding site; other site 316407000031 trimer interface [polypeptide binding]; other site 316407000032 hypothetical protein; Provisional; Region: PRK10659 316407000033 hypothetical protein; Provisional; Region: PRK10236 316407000034 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 316407000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 316407000036 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 316407000037 hypothetical protein; Provisional; Region: PRK10154 316407000038 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 316407000039 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 316407000040 nucleotide binding site [chemical binding]; other site 316407000041 NEF interaction site [polypeptide binding]; other site 316407000042 SBD interface [polypeptide binding]; other site 316407000043 chaperone protein DnaJ; Provisional; Region: PRK10767 316407000044 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 316407000045 HSP70 interaction site [polypeptide binding]; other site 316407000046 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316407000047 substrate binding site [polypeptide binding]; other site 316407000048 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 316407000049 Zn binding sites [ion binding]; other site 316407000050 dimer interface [polypeptide binding]; other site 316407000051 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316407000052 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407000053 Hok/gef family; Region: HOK_GEF; pfam01848 316407000054 Hok/gef family; Region: HOK_GEF; pfam01848 316407000055 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 316407000056 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 316407000057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407000058 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 316407000059 putative dimerization interface [polypeptide binding]; other site 316407000060 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407000061 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407000062 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407000063 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407000064 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 316407000065 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 316407000066 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 316407000067 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 316407000068 active site 316407000069 Riboflavin kinase; Region: Flavokinase; smart00904 316407000070 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 316407000071 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 316407000072 active site 316407000073 HIGH motif; other site 316407000074 KMSKS motif; other site 316407000075 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 316407000076 tRNA binding surface [nucleotide binding]; other site 316407000077 anticodon binding site; other site 316407000078 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316407000079 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 316407000080 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 316407000081 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 316407000082 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 316407000083 Fe-S cluster binding site [ion binding]; other site 316407000084 substrate binding site [chemical binding]; other site 316407000085 catalytic site [active] 316407000086 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 316407000087 active site 316407000088 tetramer interface [polypeptide binding]; other site 316407000089 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 316407000090 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 316407000091 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 316407000092 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 316407000093 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 316407000094 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 316407000095 catalytic site [active] 316407000096 subunit interface [polypeptide binding]; other site 316407000097 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 316407000098 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316407000099 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316407000100 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 316407000101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316407000102 ATP-grasp domain; Region: ATP-grasp_4; cl17255 316407000103 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 316407000104 IMP binding site; other site 316407000105 dimer interface [polypeptide binding]; other site 316407000106 interdomain contacts; other site 316407000107 partial ornithine binding site; other site 316407000108 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 316407000109 carnitine operon protein CaiE; Provisional; Region: PRK13627 316407000110 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 316407000111 putative trimer interface [polypeptide binding]; other site 316407000112 putative metal binding site [ion binding]; other site 316407000113 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 316407000114 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 316407000115 substrate binding site [chemical binding]; other site 316407000116 oxyanion hole (OAH) forming residues; other site 316407000117 trimer interface [polypeptide binding]; other site 316407000118 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 316407000119 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 316407000120 acyl-activating enzyme (AAE) consensus motif; other site 316407000121 putative AMP binding site [chemical binding]; other site 316407000122 putative active site [active] 316407000123 putative CoA binding site [chemical binding]; other site 316407000124 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 316407000125 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 316407000126 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316407000127 active site 316407000128 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 316407000129 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 316407000130 Ligand binding site [chemical binding]; other site 316407000131 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 316407000132 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316407000133 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316407000134 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407000135 putative oxidoreductase FixC; Provisional; Region: PRK10157 316407000136 ferredoxin-like protein FixX; Provisional; Region: PRK15449 316407000137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407000138 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 316407000139 putative substrate translocation pore; other site 316407000140 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 316407000141 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 316407000142 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 316407000143 TrkA-N domain; Region: TrkA_N; pfam02254 316407000144 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 316407000145 folate binding site [chemical binding]; other site 316407000146 NADP+ binding site [chemical binding]; other site 316407000147 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 316407000148 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 316407000149 active site 316407000150 metal binding site [ion binding]; metal-binding site 316407000151 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 316407000152 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 316407000153 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 316407000154 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 316407000155 SurA N-terminal domain; Region: SurA_N; pfam09312 316407000156 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316407000157 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 316407000158 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 316407000159 OstA-like protein; Region: OstA; pfam03968 316407000160 Organic solvent tolerance protein; Region: OstA_C; pfam04453 316407000161 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 316407000162 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 316407000163 putative metal binding site [ion binding]; other site 316407000164 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 316407000165 HSP70 interaction site [polypeptide binding]; other site 316407000166 potential frameshift: common BLAST hit: gi|254791195|ref|YP_003076032.1| non-LEE-encoded type III effector 316407000167 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316407000168 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316407000169 active site 316407000170 ATP-dependent helicase HepA; Validated; Region: PRK04914 316407000171 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 316407000172 ATP binding site [chemical binding]; other site 316407000173 putative Mg++ binding site [ion binding]; other site 316407000174 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 316407000175 nucleotide binding region [chemical binding]; other site 316407000176 ATP-binding site [chemical binding]; other site 316407000177 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 316407000178 DNA polymerase II; Reviewed; Region: PRK05762 316407000179 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 316407000180 active site 316407000181 catalytic site [active] 316407000182 substrate binding site [chemical binding]; other site 316407000183 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 316407000184 active site 316407000185 metal-binding site 316407000186 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 316407000187 intersubunit interface [polypeptide binding]; other site 316407000188 active site 316407000189 Zn2+ binding site [ion binding]; other site 316407000190 L-arabinose isomerase; Provisional; Region: PRK02929 316407000191 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 316407000192 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 316407000193 trimer interface [polypeptide binding]; other site 316407000194 putative substrate binding site [chemical binding]; other site 316407000195 putative metal binding site [ion binding]; other site 316407000196 ribulokinase; Provisional; Region: PRK04123 316407000197 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 316407000198 N- and C-terminal domain interface [polypeptide binding]; other site 316407000199 active site 316407000200 MgATP binding site [chemical binding]; other site 316407000201 catalytic site [active] 316407000202 metal binding site [ion binding]; metal-binding site 316407000203 carbohydrate binding site [chemical binding]; other site 316407000204 homodimer interface [polypeptide binding]; other site 316407000205 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 316407000206 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316407000207 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000209 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316407000210 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 316407000211 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 316407000212 Walker A/P-loop; other site 316407000213 ATP binding site [chemical binding]; other site 316407000214 Q-loop/lid; other site 316407000215 ABC transporter signature motif; other site 316407000216 Walker B; other site 316407000217 D-loop; other site 316407000218 H-loop/switch region; other site 316407000219 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 316407000220 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 316407000221 dimer interface [polypeptide binding]; other site 316407000222 conserved gate region; other site 316407000223 putative PBP binding loops; other site 316407000224 ABC-ATPase subunit interface; other site 316407000225 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 316407000226 dimer interface [polypeptide binding]; other site 316407000227 conserved gate region; other site 316407000228 putative PBP binding loops; other site 316407000229 ABC-ATPase subunit interface; other site 316407000230 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 316407000231 transcriptional regulator SgrR; Provisional; Region: PRK13626 316407000232 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 316407000233 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 316407000234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407000235 sugar efflux transporter; Region: 2A0120; TIGR00899 316407000236 putative substrate translocation pore; other site 316407000237 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 316407000238 substrate binding site [chemical binding]; other site 316407000239 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 316407000240 substrate binding site [chemical binding]; other site 316407000241 ligand binding site [chemical binding]; other site 316407000242 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 316407000243 2-isopropylmalate synthase; Validated; Region: PRK00915 316407000244 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 316407000245 active site 316407000246 catalytic residues [active] 316407000247 metal binding site [ion binding]; metal-binding site 316407000248 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 316407000249 leu operon leader peptide; Provisional; Region: PRK09925 316407000250 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 316407000251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407000252 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 316407000253 putative substrate binding pocket [chemical binding]; other site 316407000254 putative dimerization interface [polypeptide binding]; other site 316407000255 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 316407000256 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316407000257 PYR/PP interface [polypeptide binding]; other site 316407000258 dimer interface [polypeptide binding]; other site 316407000259 TPP binding site [chemical binding]; other site 316407000260 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316407000261 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 316407000262 TPP-binding site [chemical binding]; other site 316407000263 dimer interface [polypeptide binding]; other site 316407000264 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 316407000265 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 316407000266 putative valine binding site [chemical binding]; other site 316407000267 dimer interface [polypeptide binding]; other site 316407000268 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 316407000269 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 316407000270 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407000271 DNA binding site [nucleotide binding] 316407000272 domain linker motif; other site 316407000273 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 316407000274 dimerization interface [polypeptide binding]; other site 316407000275 ligand binding site [chemical binding]; other site 316407000276 mraZ protein; Region: TIGR00242 316407000277 MraZ protein; Region: MraZ; pfam02381 316407000278 MraZ protein; Region: MraZ; pfam02381 316407000279 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 316407000280 cell division protein FtsL; Provisional; Region: PRK10772 316407000281 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 316407000282 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 316407000283 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316407000284 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 316407000285 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316407000286 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407000287 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407000288 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 316407000289 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316407000290 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407000291 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407000292 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 316407000293 Mg++ binding site [ion binding]; other site 316407000294 putative catalytic motif [active] 316407000295 putative substrate binding site [chemical binding]; other site 316407000296 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 316407000297 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407000298 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407000299 cell division protein FtsW; Provisional; Region: PRK10774 316407000300 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 316407000301 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 316407000302 active site 316407000303 homodimer interface [polypeptide binding]; other site 316407000304 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 316407000305 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316407000306 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407000307 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407000308 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 316407000309 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316407000310 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 316407000311 cell division protein FtsQ; Provisional; Region: PRK10775 316407000312 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 316407000313 Cell division protein FtsQ; Region: FtsQ; pfam03799 316407000314 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 316407000315 Cell division protein FtsA; Region: FtsA; pfam14450 316407000316 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407000317 Cell division protein FtsA; Region: FtsA; pfam14450 316407000318 cell division protein FtsZ; Validated; Region: PRK09330 316407000319 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 316407000320 nucleotide binding site [chemical binding]; other site 316407000321 SulA interaction site; other site 316407000322 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 316407000323 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 316407000324 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 316407000325 SecA regulator SecM; Provisional; Region: PRK02943 316407000326 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 316407000327 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 316407000328 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 316407000329 SEC-C motif; Region: SEC-C; pfam02810 316407000330 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 316407000331 active site 316407000332 8-oxo-dGMP binding site [chemical binding]; other site 316407000333 nudix motif; other site 316407000334 metal binding site [ion binding]; metal-binding site 316407000335 DNA gyrase inhibitor; Reviewed; Region: PRK00418 316407000336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 316407000337 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 316407000338 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 316407000339 CoA-binding site [chemical binding]; other site 316407000340 ATP-binding [chemical binding]; other site 316407000341 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 316407000342 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 316407000343 active site 316407000344 type IV pilin biogenesis protein; Provisional; Region: PRK10573 316407000345 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316407000346 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316407000347 hypothetical protein; Provisional; Region: PRK10436 316407000348 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 316407000349 Walker A motif; other site 316407000350 ATP binding site [chemical binding]; other site 316407000351 Walker B motif; other site 316407000352 putative major pilin subunit; Provisional; Region: PRK10574 316407000353 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 316407000354 Pilin (bacterial filament); Region: Pilin; pfam00114 316407000355 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 316407000356 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 316407000357 dimerization interface [polypeptide binding]; other site 316407000358 active site 316407000359 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316407000360 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 316407000361 amidase catalytic site [active] 316407000362 Zn binding residues [ion binding]; other site 316407000363 substrate binding site [chemical binding]; other site 316407000364 regulatory protein AmpE; Provisional; Region: PRK10987 316407000365 aromatic amino acid transporter; Provisional; Region: PRK10238 316407000366 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407000367 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 316407000368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407000369 DNA-binding site [nucleotide binding]; DNA binding site 316407000370 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407000371 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 316407000372 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 316407000373 dimer interface [polypeptide binding]; other site 316407000374 TPP-binding site [chemical binding]; other site 316407000375 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 316407000376 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 316407000377 E3 interaction surface; other site 316407000378 lipoyl attachment site [posttranslational modification]; other site 316407000379 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 316407000380 E3 interaction surface; other site 316407000381 lipoyl attachment site [posttranslational modification]; other site 316407000382 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 316407000383 E3 interaction surface; other site 316407000384 lipoyl attachment site [posttranslational modification]; other site 316407000385 e3 binding domain; Region: E3_binding; pfam02817 316407000386 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316407000387 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 316407000388 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407000389 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407000390 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 316407000391 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 316407000392 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 316407000393 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 316407000394 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 316407000395 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 316407000396 substrate binding site [chemical binding]; other site 316407000397 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 316407000398 substrate binding site [chemical binding]; other site 316407000399 ligand binding site [chemical binding]; other site 316407000400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3112 316407000401 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 316407000402 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 316407000403 S-adenosylmethionine binding site [chemical binding]; other site 316407000404 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 316407000405 multicopper oxidase; Provisional; Region: PRK10965 316407000406 The first Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_1_CueO_FtsP; cd04232 316407000407 Domain 2 interface [polypeptide binding]; other site 316407000408 Domain 3 interface [polypeptide binding]; other site 316407000409 trinuclear Cu binding site [ion binding]; other site 316407000410 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 316407000411 Domain 1 interface [polypeptide binding]; other site 316407000412 Domain 3 interface [polypeptide binding]; other site 316407000413 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 316407000414 Domain 2 interface [polypeptide binding]; other site 316407000415 Domain 1 interface [polypeptide binding]; other site 316407000416 Type 1 (T1) Cu binding site [ion binding]; other site 316407000417 trinuclear Cu binding site [ion binding]; other site 316407000418 Glucose dehydrogenase [Carbohydrate transport and metabolism]; Region: Gcd; COG4993 316407000419 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 316407000420 Trp docking motif [polypeptide binding]; other site 316407000421 putative active site [active] 316407000422 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407000423 active site 316407000424 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 316407000425 active site clefts [active] 316407000426 zinc binding site [ion binding]; other site 316407000427 dimer interface [polypeptide binding]; other site 316407000428 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316407000429 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316407000430 Walker A/P-loop; other site 316407000431 ATP binding site [chemical binding]; other site 316407000432 Q-loop/lid; other site 316407000433 ABC transporter signature motif; other site 316407000434 Walker B; other site 316407000435 D-loop; other site 316407000436 H-loop/switch region; other site 316407000437 inner membrane transport permease; Provisional; Region: PRK15066 316407000438 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316407000439 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 316407000440 active pocket/dimerization site; other site 316407000441 active site 316407000442 phosphorylation site [posttranslational modification] 316407000443 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 316407000444 putative active site [active] 316407000445 putative metal binding site [ion binding]; other site 316407000446 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 316407000447 tetramerization interface [polypeptide binding]; other site 316407000448 active site 316407000449 Uncharacterized conserved protein [Function unknown]; Region: COG5464 316407000450 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316407000451 Pantoate-beta-alanine ligase; Region: PanC; cd00560 316407000452 active site 316407000453 ATP-binding site [chemical binding]; other site 316407000454 pantoate-binding site; other site 316407000455 HXXH motif; other site 316407000456 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 316407000457 oligomerization interface [polypeptide binding]; other site 316407000458 active site 316407000459 metal binding site [ion binding]; metal-binding site 316407000460 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 316407000461 putative fimbrial protein StaF; Provisional; Region: PRK15262 316407000462 putative fimbrial protein StaE; Provisional; Region: PRK15263 316407000463 Fimbrial protein; Region: Fimbrial; cl01416 316407000464 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 316407000465 PapC N-terminal domain; Region: PapC_N; pfam13954 316407000466 Outer membrane usher protein; Region: Usher; pfam00577 316407000467 PapC C-terminal domain; Region: PapC_C; pfam13953 316407000468 putative chaperone protein EcpD; Provisional; Region: PRK09926 316407000469 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407000470 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407000471 Fimbrial protein; Region: Fimbrial; cl01416 316407000472 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 316407000473 catalytic center binding site [active] 316407000474 ATP binding site [chemical binding]; other site 316407000475 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 316407000476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316407000477 active site 316407000478 NTP binding site [chemical binding]; other site 316407000479 metal binding triad [ion binding]; metal-binding site 316407000480 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 316407000481 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 316407000482 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 316407000483 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 316407000484 active site 316407000485 nucleotide binding site [chemical binding]; other site 316407000486 HIGH motif; other site 316407000487 KMSKS motif; other site 316407000488 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 316407000489 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 316407000490 2'-5' RNA ligase; Provisional; Region: PRK15124 316407000491 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316407000492 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 316407000493 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 316407000494 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 316407000495 ATP binding site [chemical binding]; other site 316407000496 putative Mg++ binding site [ion binding]; other site 316407000497 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 316407000498 nucleotide binding region [chemical binding]; other site 316407000499 ATP-binding site [chemical binding]; other site 316407000500 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 316407000501 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 316407000502 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 316407000503 Transmembrane domain of transglycosylase PBP1 at N-terminal; Region: PBP1_TM; pfam14812 316407000504 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 316407000505 Transglycosylase; Region: Transgly; pfam00912 316407000506 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316407000507 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 316407000508 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 316407000509 N-terminal plug; other site 316407000510 ligand-binding site [chemical binding]; other site 316407000511 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 316407000512 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316407000513 Walker A/P-loop; other site 316407000514 ATP binding site [chemical binding]; other site 316407000515 Q-loop/lid; other site 316407000516 ABC transporter signature motif; other site 316407000517 Walker B; other site 316407000518 D-loop; other site 316407000519 H-loop/switch region; other site 316407000520 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 316407000521 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 316407000522 siderophore binding site; other site 316407000523 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 316407000524 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 316407000525 ABC-ATPase subunit interface; other site 316407000526 dimer interface [polypeptide binding]; other site 316407000527 putative PBP binding regions; other site 316407000528 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 316407000529 ABC-ATPase subunit interface; other site 316407000530 dimer interface [polypeptide binding]; other site 316407000531 putative PBP binding regions; other site 316407000532 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 316407000533 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 316407000534 inhibitor-cofactor binding pocket; inhibition site 316407000535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407000536 catalytic residue [active] 316407000537 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 316407000538 Cl- selectivity filter; other site 316407000539 Cl- binding residues [ion binding]; other site 316407000540 pore gating glutamate residue; other site 316407000541 dimer interface [polypeptide binding]; other site 316407000542 H+/Cl- coupling transport residue; other site 316407000543 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 316407000544 hypothetical protein; Provisional; Region: PRK10578 316407000545 UPF0126 domain; Region: UPF0126; pfam03458 316407000546 UPF0126 domain; Region: UPF0126; pfam03458 316407000547 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 316407000548 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 316407000549 cobalamin binding residues [chemical binding]; other site 316407000550 putative BtuC binding residues; other site 316407000551 dimer interface [polypeptide binding]; other site 316407000552 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 316407000553 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 316407000554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407000555 Zn2+ binding site [ion binding]; other site 316407000556 Mg2+ binding site [ion binding]; other site 316407000557 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 316407000558 serine endoprotease; Provisional; Region: PRK10942 316407000559 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316407000560 PDZ domain of trypsin-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 316407000561 protein binding site [polypeptide binding]; other site 316407000562 PDZ domain of trypsin-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 316407000563 protein binding site [polypeptide binding]; other site 316407000564 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 316407000565 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 316407000566 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 316407000567 hypothetical protein; Provisional; Region: PRK13677 316407000568 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 316407000569 putative active site [active] 316407000570 putative metal binding site [ion binding]; other site 316407000571 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 316407000572 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 316407000573 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 316407000574 trimer interface [polypeptide binding]; other site 316407000575 active site 316407000576 substrate binding site [chemical binding]; other site 316407000577 CoA binding site [chemical binding]; other site 316407000578 PII uridylyl-transferase; Provisional; Region: PRK05007 316407000579 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316407000580 metal binding triad; other site 316407000581 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316407000582 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407000583 Zn2+ binding site [ion binding]; other site 316407000584 Mg2+ binding site [ion binding]; other site 316407000585 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 316407000586 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 316407000587 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 316407000588 active site 316407000589 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 316407000590 rRNA interaction site [nucleotide binding]; other site 316407000591 S8 interaction site; other site 316407000592 putative laminin-1 binding site; other site 316407000593 elongation factor Ts; Provisional; Region: tsf; PRK09377 316407000594 UBA/TS-N domain; Region: UBA; pfam00627 316407000595 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 316407000596 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 316407000597 putative nucleotide binding site [chemical binding]; other site 316407000598 uridine monophosphate binding site [chemical binding]; other site 316407000599 homohexameric interface [polypeptide binding]; other site 316407000600 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 316407000601 hinge region; other site 316407000602 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 316407000603 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 316407000604 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 316407000605 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 316407000606 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 316407000607 active site 316407000608 dimer interface [polypeptide binding]; other site 316407000609 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 316407000610 zinc metallopeptidase RseP; Provisional; Region: PRK10779 316407000611 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 316407000612 active site 316407000613 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 316407000614 protein binding site [polypeptide binding]; other site 316407000615 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 316407000616 protein binding site [polypeptide binding]; other site 316407000617 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 316407000618 putative substrate binding region [chemical binding]; other site 316407000619 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 316407000620 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407000621 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407000622 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407000623 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407000624 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407000625 Surface antigen; Region: Bac_surface_Ag; pfam01103 316407000626 periplasmic chaperone; Provisional; Region: PRK10780 316407000627 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 316407000628 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 316407000629 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 316407000630 trimer interface [polypeptide binding]; other site 316407000631 active site 316407000632 UDP-GlcNAc binding site [chemical binding]; other site 316407000633 lipid binding site [chemical binding]; lipid-binding site 316407000634 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 316407000635 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 316407000636 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 316407000637 active site 316407000638 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 316407000639 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 316407000640 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 316407000641 RNA/DNA hybrid binding site [nucleotide binding]; other site 316407000642 active site 316407000643 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 316407000644 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 316407000645 putative active site [active] 316407000646 putative PHP Thumb interface [polypeptide binding]; other site 316407000647 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 316407000648 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 316407000649 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 316407000650 generic binding surface II; other site 316407000651 generic binding surface I; other site 316407000652 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 316407000653 lysine decarboxylase LdcC; Provisional; Region: PRK15399 316407000654 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316407000655 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 316407000656 homodimer interface [polypeptide binding]; other site 316407000657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407000658 catalytic residue [active] 316407000659 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316407000660 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 316407000661 putative metal binding site [ion binding]; other site 316407000662 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 316407000663 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 316407000664 Ligand Binding Site [chemical binding]; other site 316407000665 TilS substrate binding domain; Region: TilS; pfam09179 316407000666 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 316407000667 Rho-binding antiterminator; Provisional; Region: PRK11625 316407000668 hypothetical protein; Provisional; Region: PRK04964 316407000669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 316407000670 hypothetical protein; Provisional; Region: PRK09256 316407000671 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 316407000672 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 316407000673 Uncharacterized lipoprotein NlpE involved in copper resistance [Cell envelope biogenesis, outer membrane / Inorganic ion transport and metabolism]; Region: CutF; COG3015 316407000674 hypothetical protein; Provisional; Region: PRK11479 316407000675 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316407000676 prolyl-tRNA synthetase; Provisional; Region: PRK09194 316407000677 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 316407000678 dimer interface [polypeptide binding]; other site 316407000679 motif 1; other site 316407000680 active site 316407000681 motif 2; other site 316407000682 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 316407000683 putative deacylase active site [active] 316407000684 motif 3; other site 316407000685 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 316407000686 anticodon binding site; other site 316407000687 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 316407000688 homodimer interaction site [polypeptide binding]; other site 316407000689 cofactor binding site; other site 316407000690 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 316407000691 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 316407000692 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 316407000693 dimer interface [polypeptide binding]; other site 316407000694 conserved gate region; other site 316407000695 putative PBP binding loops; other site 316407000696 ABC-ATPase subunit interface; other site 316407000697 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 316407000698 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 316407000699 Walker A/P-loop; other site 316407000700 ATP binding site [chemical binding]; other site 316407000701 Q-loop/lid; other site 316407000702 ABC transporter signature motif; other site 316407000703 Walker B; other site 316407000704 D-loop; other site 316407000705 H-loop/switch region; other site 316407000706 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 316407000707 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 316407000708 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 316407000709 active site 316407000710 motif I; other site 316407000711 motif II; other site 316407000712 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 316407000713 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407000714 active site 316407000715 catalytic tetrad [active] 316407000716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407000717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407000718 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 316407000719 putative effector binding pocket; other site 316407000720 dimerization interface [polypeptide binding]; other site 316407000721 hypothetical protein; Provisional; Region: PRK05421 316407000722 putative catalytic site [active] 316407000723 putative metal binding site [ion binding]; other site 316407000724 putative phosphate binding site [ion binding]; other site 316407000725 putative catalytic site [active] 316407000726 putative phosphate binding site [ion binding]; other site 316407000727 putative metal binding site [ion binding]; other site 316407000728 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316407000729 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 316407000730 S-adenosylmethionine binding site [chemical binding]; other site 316407000731 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 316407000732 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 316407000733 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407000734 catalytic residue [active] 316407000735 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407000736 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407000737 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 316407000738 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 316407000739 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 316407000740 RNA/DNA hybrid binding site [nucleotide binding]; other site 316407000741 active site 316407000742 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 316407000743 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 316407000744 active site 316407000745 catalytic site [active] 316407000746 substrate binding site [chemical binding]; other site 316407000747 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407000748 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 316407000749 putative active site [active] 316407000750 catalytic triad [active] 316407000751 dimer interface [polypeptide binding]; other site 316407000752 multimer interface [polypeptide binding]; other site 316407000753 C-lysozyme inhibitor; Provisional; Region: PRK09993 316407000754 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 316407000755 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 316407000756 active site 316407000757 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 316407000758 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 316407000759 dimer interface [polypeptide binding]; other site 316407000760 active site 316407000761 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 316407000762 putative active site [active] 316407000763 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 316407000764 putative dimer interface [polypeptide binding]; other site 316407000765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 316407000766 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407000767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 316407000768 RelB antitoxin; Region: RelB; pfam04221 316407000769 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316407000770 NlpC/P60 family; Region: NLPC_P60; pfam00877 316407000771 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 316407000772 'ECK0230:JW5811:b0229; flagellar system protein, promoterless fragment' 316407000773 'ECK0231:JW5812:b0230; flagellar system protein, promoterless fragment' 316407000774 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 316407000775 active site 316407000776 DNA polymerase IV; Validated; Region: PRK02406 316407000777 DNA binding site [nucleotide binding] 316407000778 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 316407000779 putative toxin YafO; Provisional; Region: PRK09885 316407000780 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316407000781 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407000782 Coenzyme A binding pocket [chemical binding]; other site 316407000783 Uncharacterized conserved protein [Function unknown]; Region: RtcB; cl17455 316407000784 RF-1 domain; Region: RF-1; cl17422 316407000785 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 316407000786 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 316407000787 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 316407000788 metal binding site [ion binding]; metal-binding site 316407000789 dimer interface [polypeptide binding]; other site 316407000790 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407000791 active site 316407000792 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 316407000793 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 316407000794 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 316407000795 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 316407000796 trimer interface [polypeptide binding]; other site 316407000797 eyelet of channel; other site 316407000798 gamma-glutamyl kinase; Provisional; Region: PRK05429 316407000799 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 316407000800 nucleotide binding site [chemical binding]; other site 316407000801 homotetrameric interface [polypeptide binding]; other site 316407000802 putative phosphate binding site [ion binding]; other site 316407000803 putative allosteric binding site; other site 316407000804 PUA domain; Region: PUA; pfam01472 316407000805 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 316407000806 putative catalytic cysteine [active] 316407000807 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316407000808 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316407000809 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316407000810 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316407000811 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316407000812 MPN+ (JAMM) motif; other site 316407000813 Zinc-binding site [ion binding]; other site 316407000814 Antirestriction protein; Region: Antirestrict; pfam03230 316407000815 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 316407000816 Predicted transcriptional regulator [Transcription]; Region: COG2378 316407000817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 316407000818 Domain of unknown function (DUF932); Region: DUF932; pfam06067 316407000819 Predicted GTPase [General function prediction only]; Region: COG3596 316407000820 YfjP GTPase; Region: YfjP; cd11383 316407000821 G1 box; other site 316407000822 GTP/Mg2+ binding site [chemical binding]; other site 316407000823 Switch I region; other site 316407000824 G2 box; other site 316407000825 Switch II region; other site 316407000826 G3 box; other site 316407000827 G4 box; other site 316407000828 G5 box; other site 316407000829 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 316407000830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407000831 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 316407000832 dimerization interface [polypeptide binding]; other site 316407000833 substrate binding pocket [chemical binding]; other site 316407000834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407000835 Transposase; Region: HTH_Tnp_1; cl17663 316407000836 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316407000837 Helix-turn-helix domain; Region: HTH_38; pfam13936 316407000838 Homeodomain-like domain; Region: HTH_32; pfam13565 316407000839 Integrase core domain; Region: rve; pfam00665 316407000840 HTH-like domain; Region: HTH_21; pfam13276 316407000841 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 316407000842 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 316407000843 putative active site [active] 316407000844 putative NTP binding site [chemical binding]; other site 316407000845 putative nucleic acid binding site [nucleotide binding]; other site 316407000846 Transposase domain (DUF772); Region: DUF772; pfam05598 316407000847 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407000848 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407000849 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407000850 S-methylmethionine transporter; Provisional; Region: PRK11387 316407000851 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407000852 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 316407000853 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 316407000854 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407000855 Walker A/P-loop; other site 316407000856 ATP binding site [chemical binding]; other site 316407000857 Q-loop/lid; other site 316407000858 ABC transporter signature motif; other site 316407000859 Walker B; other site 316407000860 D-loop; other site 316407000861 H-loop/switch region; other site 316407000862 TOBE domain; Region: TOBE_2; pfam08402 316407000863 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316407000864 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 316407000865 ABC-ATPase subunit interface; other site 316407000866 putative PBP binding loops; other site 316407000867 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407000868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407000869 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407000870 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407000871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407000872 Transposase; Region: HTH_Tnp_1; pfam01527 316407000873 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316407000874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407000875 Helix-turn-helix domain; Region: HTH_28; pfam13518 316407000876 Homeodomain-like domain; Region: HTH_32; pfam13565 316407000877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 316407000878 Integrase core domain; Region: rve; pfam00665 316407000879 Integrase core domain; Region: rve_3; pfam13683 316407000880 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316407000881 inhibitor site; inhibition site 316407000882 active site 316407000883 dimer interface [polypeptide binding]; other site 316407000884 catalytic residue [active] 316407000885 putative dehydratase; Provisional; Region: PRK08211 316407000886 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316407000887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407000888 putative substrate translocation pore; other site 316407000889 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 316407000890 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 316407000891 inhibitor binding site; inhibition site 316407000892 active site 316407000893 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 316407000894 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407000895 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316407000896 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407000897 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 316407000898 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316407000899 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316407000900 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407000901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407000902 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407000903 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407000904 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 316407000905 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316407000906 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 316407000907 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 316407000908 active site 316407000909 DNA binding site [nucleotide binding] 316407000910 Int/Topo IB signature motif; other site 316407000911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407000912 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 316407000913 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316407000914 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316407000915 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316407000916 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 316407000917 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316407000918 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316407000919 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 316407000920 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 316407000921 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 316407000922 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 316407000923 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 316407000924 catalytic loop [active] 316407000925 iron binding site [ion binding]; other site 316407000926 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316407000927 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 316407000928 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 316407000929 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 316407000930 Outer membrane usher protein; Region: Usher; pfam00577 316407000931 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 316407000932 putative fimbrial protein TcfA; Provisional; Region: PRK15308 316407000933 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 316407000934 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 316407000935 DNA binding residues [nucleotide binding] 316407000936 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 316407000937 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 316407000938 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316407000939 Transposase; Region: HTH_Tnp_1; cl17663 316407000940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407000941 putative transposase OrfB; Reviewed; Region: PHA02517 316407000942 HTH-like domain; Region: HTH_21; pfam13276 316407000943 Integrase core domain; Region: rve; pfam00665 316407000944 Integrase core domain; Region: rve_2; pfam13333 316407000945 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 316407000946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000948 Predicted membrane protein [Function unknown]; Region: COG3059 316407000949 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407000950 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 316407000951 Squalene epoxidase; Region: SE; cl17314 316407000952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407000953 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 316407000954 Cupin; Region: Cupin_6; pfam12852 316407000955 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316407000956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407000958 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 316407000959 Cysteine-rich domain; Region: CCG; pfam02754 316407000960 Cysteine-rich domain; Region: CCG; pfam02754 316407000961 iron-sulfur cluster-binding protein; Region: TIGR00273 316407000962 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 316407000963 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407000964 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 316407000965 Uncharacterized conserved protein [Function unknown]; Region: COG1556 316407000966 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407000967 choline dehydrogenase; Validated; Region: PRK02106 316407000968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407000969 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 316407000970 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 316407000971 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 316407000972 tetrameric interface [polypeptide binding]; other site 316407000973 NAD binding site [chemical binding]; other site 316407000974 catalytic residues [active] 316407000975 transcriptional regulator BetI; Validated; Region: PRK00767 316407000976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407000977 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 316407000978 choline transport protein BetT; Provisional; Region: PRK09928 316407000979 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 316407000980 DNA binding residues [nucleotide binding] 316407000981 dimerization interface [polypeptide binding]; other site 316407000982 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 316407000983 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 316407000984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407000985 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 316407000986 dimerization interface [polypeptide binding]; other site 316407000987 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 316407000988 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 316407000989 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 316407000990 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 316407000991 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 316407000992 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 316407000993 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 316407000994 CoA binding domain; Region: CoA_binding; pfam02629 316407000995 CoA-ligase; Region: Ligase_CoA; pfam00549 316407000996 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 316407000997 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 316407000998 putative substrate binding site [chemical binding]; other site 316407000999 nucleotide binding site [chemical binding]; other site 316407001000 nucleotide binding site [chemical binding]; other site 316407001001 homodimer interface [polypeptide binding]; other site 316407001002 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 316407001003 cytosine deaminase; Provisional; Region: PRK05985 316407001004 active site 316407001005 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316407001006 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 316407001007 putative NAD(P) binding site [chemical binding]; other site 316407001008 putative substrate binding site [chemical binding]; other site 316407001009 catalytic Zn binding site [ion binding]; other site 316407001010 structural Zn binding site [ion binding]; other site 316407001011 dimer interface [polypeptide binding]; other site 316407001012 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 316407001013 hypothetical protein; Provisional; Region: PRK09929 316407001014 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 316407001015 Propionate catabolism activator; Region: PrpR_N; pfam06506 316407001016 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 316407001017 Walker A motif; other site 316407001018 ATP binding site [chemical binding]; other site 316407001019 Walker B motif; other site 316407001020 arginine finger; other site 316407001021 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407001022 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 316407001023 tetramer interface [polypeptide binding]; other site 316407001024 active site 316407001025 Mg2+/Mn2+ binding site [ion binding]; other site 316407001026 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 316407001027 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 316407001028 dimer interface [polypeptide binding]; other site 316407001029 active site 316407001030 citrylCoA binding site [chemical binding]; other site 316407001031 oxalacetate/citrate binding site [chemical binding]; other site 316407001032 coenzyme A binding site [chemical binding]; other site 316407001033 catalytic triad [active] 316407001034 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 316407001035 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 316407001036 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 316407001037 acyl-activating enzyme (AAE) consensus motif; other site 316407001038 putative AMP binding site [chemical binding]; other site 316407001039 putative active site [active] 316407001040 putative CoA binding site [chemical binding]; other site 316407001041 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 316407001042 Na binding site [ion binding]; other site 316407001043 putative substrate binding site [chemical binding]; other site 316407001044 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 316407001045 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 316407001046 active site 316407001047 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 316407001048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407001049 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 316407001050 dimerization interface [polypeptide binding]; other site 316407001051 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 316407001052 active site clefts [active] 316407001053 zinc binding site [ion binding]; other site 316407001054 dimer interface [polypeptide binding]; other site 316407001055 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 316407001056 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 316407001057 oligomer interface [polypeptide binding]; other site 316407001058 active site 316407001059 putative cyanate transporter; Provisional; Region: cynX; PRK09705 316407001060 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001061 putative substrate translocation pore; other site 316407001062 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 316407001063 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 316407001064 active site 316407001065 substrate binding site [chemical binding]; other site 316407001066 trimer interface [polypeptide binding]; other site 316407001067 CoA binding site [chemical binding]; other site 316407001068 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 316407001069 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001070 putative substrate translocation pore; other site 316407001071 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 316407001072 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 316407001073 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 316407001074 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 316407001075 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 316407001076 lac repressor; Reviewed; Region: lacI; PRK09526 316407001077 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407001078 DNA binding site [nucleotide binding] 316407001079 domain linker motif; other site 316407001080 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 316407001081 ligand binding site [chemical binding]; other site 316407001082 dimerization interface (open form) [polypeptide binding]; other site 316407001083 dimerization interface (closed form) [polypeptide binding]; other site 316407001084 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 316407001085 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407001086 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407001087 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 316407001088 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407001089 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 316407001090 putative active site [active] 316407001091 Fe(II) binding site [ion binding]; other site 316407001092 putative dimer interface [polypeptide binding]; other site 316407001093 putative tetramer interface [polypeptide binding]; other site 316407001094 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 316407001095 Putative lysophospholipase; Region: Hydrolase_4; cl19140 316407001096 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 316407001097 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 316407001098 acetaldehyde dehydrogenase; Validated; Region: PRK08300 316407001099 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 316407001100 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 316407001101 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 316407001102 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 316407001103 active site 316407001104 catalytic residues [active] 316407001105 metal binding site [ion binding]; metal-binding site 316407001106 DmpG-like communication domain; Region: DmpG_comm; pfam07836 316407001107 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 316407001108 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001109 putative substrate translocation pore; other site 316407001110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 316407001111 Predicted esterase [General function prediction only]; Region: COG0627 316407001112 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 316407001113 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 316407001114 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 316407001115 substrate binding site [chemical binding]; other site 316407001116 catalytic Zn binding site [ion binding]; other site 316407001117 NAD binding site [chemical binding]; other site 316407001118 structural Zn binding site [ion binding]; other site 316407001119 dimer interface [polypeptide binding]; other site 316407001120 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 316407001121 putative metal binding site [ion binding]; other site 316407001122 putative homodimer interface [polypeptide binding]; other site 316407001123 putative homotetramer interface [polypeptide binding]; other site 316407001124 putative homodimer-homodimer interface [polypeptide binding]; other site 316407001125 putative allosteric switch controlling residues; other site 316407001126 ECK0356:JW0350:b0359; predicted acyl transferase 316407001127 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407001128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407001129 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407001130 HTH-like domain; Region: HTH_21; pfam13276 316407001131 Integrase core domain; Region: rve; pfam00665 316407001132 Integrase core domain; Region: rve_3; pfam13683 316407001133 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 316407001134 putative trimer interface [polypeptide binding]; other site 316407001135 putative CoA binding site [chemical binding]; other site 316407001136 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 316407001137 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 316407001138 DXD motif; other site 316407001139 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 316407001140 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316407001141 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 316407001142 substrate binding pocket [chemical binding]; other site 316407001143 membrane-bound complex binding site; other site 316407001144 hinge residues; other site 316407001145 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 316407001146 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316407001147 Walker A/P-loop; other site 316407001148 ATP binding site [chemical binding]; other site 316407001149 Q-loop/lid; other site 316407001150 ABC transporter signature motif; other site 316407001151 Walker B; other site 316407001152 D-loop; other site 316407001153 H-loop/switch region; other site 316407001154 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316407001155 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 316407001156 dimer interface [polypeptide binding]; other site 316407001157 conserved gate region; other site 316407001158 putative PBP binding loops; other site 316407001159 ABC-ATPase subunit interface; other site 316407001160 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 316407001161 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 316407001162 active site 316407001163 iron coordination sites [ion binding]; other site 316407001164 substrate binding pocket [chemical binding]; other site 316407001165 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 316407001166 dimer interface [polypeptide binding]; other site 316407001167 active site 316407001168 Schiff base residues; other site 316407001169 putative transposase OrfB; Reviewed; Region: PHA02517 316407001170 HTH-like domain; Region: HTH_21; pfam13276 316407001171 Integrase core domain; Region: rve; pfam00665 316407001172 Integrase core domain; Region: rve_2; pfam13333 316407001173 Transposase; Region: HTH_Tnp_1; cl17663 316407001174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407001175 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 316407001176 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407001177 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316407001178 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 316407001179 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 316407001180 microcin B17 transporter; Reviewed; Region: PRK11098 316407001181 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 316407001182 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 316407001183 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 316407001184 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 316407001185 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 316407001186 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 316407001187 anti-RssB factor; Provisional; Region: PRK10244 316407001188 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 316407001189 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 316407001190 dimer interface [polypeptide binding]; other site 316407001191 active site 316407001192 hypothetical protein; Provisional; Region: PRK11505 316407001193 psiF repeat; Region: PsiF_repeat; pfam07769 316407001194 psiF repeat; Region: PsiF_repeat; pfam07769 316407001195 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 316407001196 MASE2 domain; Region: MASE2; pfam05230 316407001197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407001198 metal binding site [ion binding]; metal-binding site 316407001199 active site 316407001200 I-site; other site 316407001201 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 316407001202 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 316407001203 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 316407001204 hypothetical protein; Validated; Region: PRK00124 316407001205 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 316407001206 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 316407001207 ADP binding site [chemical binding]; other site 316407001208 magnesium binding site [ion binding]; other site 316407001209 putative shikimate binding site; other site 316407001210 hypothetical protein; Provisional; Region: PRK10380 316407001211 hypothetical protein; Provisional; Region: PRK10481 316407001212 hypothetical protein; Provisional; Region: PRK10579 316407001213 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 316407001214 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 316407001215 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407001216 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407001217 nucleotide binding site [chemical binding]; other site 316407001218 MFS transport protein AraJ; Provisional; Region: PRK10091 316407001219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001220 putative substrate translocation pore; other site 316407001221 exonuclease subunit SbcC; Provisional; Region: PRK10246 316407001222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407001223 Walker A/P-loop; other site 316407001224 ATP binding site [chemical binding]; other site 316407001225 Q-loop/lid; other site 316407001226 HemX; Region: HemX; cl19375 316407001227 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407001228 ABC transporter signature motif; other site 316407001229 Walker B; other site 316407001230 D-loop; other site 316407001231 H-loop/switch region; other site 316407001232 exonuclease subunit SbcD; Provisional; Region: PRK10966 316407001233 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 316407001234 active site 316407001235 metal binding site [ion binding]; metal-binding site 316407001236 DNA binding site [nucleotide binding] 316407001237 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 316407001238 transcriptional regulator PhoB; Provisional; Region: PRK10161 316407001239 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 316407001240 active site 316407001241 phosphorylation site [posttranslational modification] 316407001242 intermolecular recognition site; other site 316407001243 dimerization interface [polypeptide binding]; other site 316407001244 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 316407001245 DNA binding site [nucleotide binding] 316407001246 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 316407001247 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 316407001248 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 316407001249 putative active site [active] 316407001250 heme pocket [chemical binding]; other site 316407001251 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 316407001252 dimer interface [polypeptide binding]; other site 316407001253 phosphorylation site [posttranslational modification] 316407001254 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 316407001255 ATP binding site [chemical binding]; other site 316407001256 Mg2+ binding site [ion binding]; other site 316407001257 G-X-G motif; other site 316407001258 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 316407001259 putative proline-specific permease; Provisional; Region: proY; PRK10580 316407001260 Spore germination protein; Region: Spore_permease; cl17796 316407001261 maltodextrin glucosidase; Provisional; Region: PRK10785 316407001262 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 316407001263 homodimer interface [polypeptide binding]; other site 316407001264 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 316407001265 active site 316407001266 homodimer interface [polypeptide binding]; other site 316407001267 catalytic site [active] 316407001268 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 316407001269 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 316407001270 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 316407001271 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 316407001272 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 316407001273 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 316407001274 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 316407001275 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316407001276 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 316407001277 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 316407001278 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 316407001279 Protein export membrane protein; Region: SecD_SecF; pfam02355 316407001280 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 316407001281 active site 316407001282 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 316407001283 hypothetical protein; Provisional; Region: PRK11530 316407001284 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 316407001285 ATP cone domain; Region: ATP-cone; pfam03477 316407001286 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 316407001287 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 316407001288 catalytic motif [active] 316407001289 Zn binding site [ion binding]; other site 316407001290 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 316407001291 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 316407001292 homopentamer interface [polypeptide binding]; other site 316407001293 active site 316407001294 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 316407001295 thiamine monophosphate kinase; Provisional; Region: PRK05731 316407001296 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 316407001297 ATP binding site [chemical binding]; other site 316407001298 dimerization interface [polypeptide binding]; other site 316407001299 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 316407001300 tetramer interfaces [polypeptide binding]; other site 316407001301 binuclear metal-binding site [ion binding]; other site 316407001302 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 316407001303 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407001304 active site 316407001305 catalytic tetrad [active] 316407001306 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 316407001307 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 316407001308 TPP-binding site; other site 316407001309 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 316407001310 PYR/PP interface [polypeptide binding]; other site 316407001311 dimer interface [polypeptide binding]; other site 316407001312 TPP binding site [chemical binding]; other site 316407001313 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316407001314 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316407001315 substrate binding pocket [chemical binding]; other site 316407001316 chain length determination region; other site 316407001317 active site lid residues [active] 316407001318 substrate-Mg2+ binding site; other site 316407001319 catalytic residues [active] 316407001320 aspartate-rich region 1; other site 316407001321 aspartate-rich region 2; other site 316407001322 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 316407001323 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 316407001324 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 316407001325 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 316407001326 Ligand Binding Site [chemical binding]; other site 316407001327 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 316407001328 active site residue [active] 316407001329 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 316407001330 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 316407001331 conserved cys residue [active] 316407001332 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 316407001333 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 316407001334 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 316407001335 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 316407001336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407001338 putative substrate translocation pore; other site 316407001339 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 316407001340 putative active site [active] 316407001341 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 316407001342 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 316407001343 Subunit I/III interface [polypeptide binding]; other site 316407001344 Subunit III/IV interface [polypeptide binding]; other site 316407001345 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 316407001346 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 316407001347 D-pathway; other site 316407001348 Putative ubiquinol binding site [chemical binding]; other site 316407001349 Low-spin heme (heme b) binding site [chemical binding]; other site 316407001350 Putative water exit pathway; other site 316407001351 Binuclear center (heme o3/CuB) [ion binding]; other site 316407001352 K-pathway; other site 316407001353 Putative proton exit pathway; other site 316407001354 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 316407001355 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 316407001356 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 316407001357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001358 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407001359 putative substrate translocation pore; other site 316407001360 hypothetical protein; Provisional; Region: PRK11627 316407001361 transcriptional regulator BolA; Provisional; Region: PRK11628 316407001362 trigger factor; Provisional; Region: tig; PRK01490 316407001363 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 316407001364 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316407001365 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 316407001366 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 316407001367 oligomer interface [polypeptide binding]; other site 316407001368 active site residues [active] 316407001369 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 316407001370 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 316407001371 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 316407001372 Walker A motif; other site 316407001373 ATP binding site [chemical binding]; other site 316407001374 Walker B motif; other site 316407001375 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316407001376 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 316407001377 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 316407001378 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 316407001379 Walker A motif; other site 316407001380 ATP binding site [chemical binding]; other site 316407001381 Walker B motif; other site 316407001382 arginine finger; other site 316407001383 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316407001384 histone-like DNA-binding protein HU; Region: HU; cd13831 316407001385 dimer interface [polypeptide binding]; other site 316407001386 DNA binding site [nucleotide binding] 316407001387 periplasmic folding chaperone; Provisional; Region: PRK10788 316407001388 SurA N-terminal domain; Region: SurA_N_3; cl07813 316407001389 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 316407001390 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 316407001391 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 316407001392 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 316407001393 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 316407001394 active site 316407001395 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 316407001396 Ligand Binding Site [chemical binding]; other site 316407001397 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 316407001398 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 316407001399 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 316407001400 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 316407001401 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 316407001402 active site 316407001403 motif I; other site 316407001404 motif II; other site 316407001405 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407001406 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 316407001407 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 316407001408 putative DNA binding site [nucleotide binding]; other site 316407001409 putative Zn2+ binding site [ion binding]; other site 316407001410 AsnC family; Region: AsnC_trans_reg; pfam01037 316407001411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407001412 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 316407001413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407001414 Walker A/P-loop; other site 316407001415 ATP binding site [chemical binding]; other site 316407001416 Q-loop/lid; other site 316407001417 ABC transporter signature motif; other site 316407001418 Walker B; other site 316407001419 D-loop; other site 316407001420 H-loop/switch region; other site 316407001421 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 316407001422 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407001423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407001424 Walker A/P-loop; other site 316407001425 ATP binding site [chemical binding]; other site 316407001426 Q-loop/lid; other site 316407001427 ABC transporter signature motif; other site 316407001428 Walker B; other site 316407001429 D-loop; other site 316407001430 H-loop/switch region; other site 316407001431 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 316407001432 ammonium transporter; Provisional; Region: PRK10666 316407001433 acyl-CoA thioesterase II; Provisional; Region: PRK10526 316407001434 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 316407001435 active site 316407001436 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 316407001437 catalytic triad [active] 316407001438 dimer interface [polypeptide binding]; other site 316407001439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 316407001440 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 316407001441 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 316407001442 DNA binding site [nucleotide binding] 316407001443 active site 316407001444 Uncharacterized conserved protein [Function unknown]; Region: COG5507 316407001445 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 316407001446 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316407001447 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 316407001448 Inner membrane protein YlaC; Region: YlaC; pfam10777 316407001449 maltose O-acetyltransferase; Provisional; Region: PRK10092 316407001450 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 316407001451 active site 316407001452 substrate binding site [chemical binding]; other site 316407001453 trimer interface [polypeptide binding]; other site 316407001454 CoA binding site [chemical binding]; other site 316407001455 gene expression modulator; Provisional; Region: PRK10945 316407001456 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 316407001457 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 316407001458 MMPL family; Region: MMPL; cl14618 316407001459 MMPL family; Region: MMPL; cl14618 316407001460 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 316407001461 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 316407001462 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407001463 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 316407001464 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407001465 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 316407001466 hypothetical protein; Provisional; Region: PRK11281 316407001467 FSIP1 family; Region: FSIP1; pfam15554 316407001468 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 316407001469 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407001470 hypothetical protein; Provisional; Region: PRK11038 316407001471 primosomal replication protein N''; Provisional; Region: PRK10093 316407001472 hypothetical protein; Provisional; Region: PRK10527 316407001473 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407001474 active site 316407001475 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 316407001476 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 316407001477 Walker A motif; other site 316407001478 ATP binding site [chemical binding]; other site 316407001479 Walker B motif; other site 316407001480 DNA polymerase III subunit delta'; Validated; Region: PRK08485 316407001481 arginine finger; other site 316407001482 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 316407001483 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 316407001484 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 316407001485 hypothetical protein; Validated; Region: PRK00153 316407001486 recombination protein RecR; Reviewed; Region: recR; PRK00076 316407001487 RecR protein; Region: RecR; pfam02132 316407001488 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 316407001489 putative active site [active] 316407001490 putative metal-binding site [ion binding]; other site 316407001491 tetramer interface [polypeptide binding]; other site 316407001492 heat shock protein 90; Provisional; Region: PRK05218 316407001493 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 316407001494 ATP binding site [chemical binding]; other site 316407001495 Mg2+ binding site [ion binding]; other site 316407001496 G-X-G motif; other site 316407001497 Hsp90 protein; Region: HSP90; pfam00183 316407001498 adenylate kinase; Reviewed; Region: adk; PRK00279 316407001499 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 316407001500 AMP-binding site [chemical binding]; other site 316407001501 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 316407001502 ferrochelatase; Region: hemH; TIGR00109 316407001503 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 316407001504 C-terminal domain interface [polypeptide binding]; other site 316407001505 active site 316407001506 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 316407001507 active site 316407001508 N-terminal domain interface [polypeptide binding]; other site 316407001509 acetyl esterase; Provisional; Region: PRK10162 316407001510 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 316407001511 inosine/guanosine kinase; Provisional; Region: PRK15074 316407001512 adenosine kinase; Provisional; Region: PTZ00247 316407001513 substrate binding site [chemical binding]; other site 316407001514 ATP binding site [chemical binding]; other site 316407001515 putative cation:proton antiport protein; Provisional; Region: PRK10669 316407001516 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 316407001517 TrkA-N domain; Region: TrkA_N; pfam02254 316407001518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407001520 putative substrate translocation pore; other site 316407001521 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 316407001522 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 316407001523 active site 316407001524 metal binding site [ion binding]; metal-binding site 316407001525 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316407001526 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 316407001527 putative deacylase active site [active] 316407001528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 316407001529 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 316407001530 non-specific DNA binding site [nucleotide binding]; other site 316407001531 salt bridge; other site 316407001532 sequence-specific DNA binding site [nucleotide binding]; other site 316407001533 copper exporting ATPase; Provisional; Region: copA; PRK10671 316407001534 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 316407001535 metal-binding site [ion binding] 316407001536 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 316407001537 metal-binding site [ion binding] 316407001538 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316407001539 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 316407001540 motif II; other site 316407001541 glutaminase; Reviewed; Region: PRK12356 316407001542 amino acid transporter; Region: 2A0306; TIGR00909 316407001543 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 316407001544 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 316407001545 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 316407001546 DNA binding residues [nucleotide binding] 316407001547 dimer interface [polypeptide binding]; other site 316407001548 copper binding site [ion binding]; other site 316407001549 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 316407001550 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 316407001551 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 316407001552 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 316407001553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407001554 Walker A/P-loop; other site 316407001555 ATP binding site [chemical binding]; other site 316407001556 Q-loop/lid; other site 316407001557 ABC transporter signature motif; other site 316407001558 Walker B; other site 316407001559 D-loop; other site 316407001560 H-loop/switch region; other site 316407001561 TIGR00245 family protein; Region: TIGR00245 316407001562 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 316407001563 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 316407001564 Tetratricopeptide repeat; Region: TPR_20; pfam14561 316407001565 short chain dehydrogenase; Validated; Region: PRK06182 316407001566 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 316407001567 NADP binding site [chemical binding]; other site 316407001568 active site 316407001569 steroid binding site; other site 316407001570 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 316407001571 active site 316407001572 catalytic triad [active] 316407001573 oxyanion hole [active] 316407001574 switch loop; other site 316407001575 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 316407001576 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316407001577 Walker A/P-loop; other site 316407001578 ATP binding site [chemical binding]; other site 316407001579 Q-loop/lid; other site 316407001580 ABC transporter signature motif; other site 316407001581 Walker B; other site 316407001582 D-loop; other site 316407001583 H-loop/switch region; other site 316407001584 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 316407001585 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316407001586 FtsX-like permease family; Region: FtsX; pfam02687 316407001587 FtsX-like permease family; Region: FtsX; pfam02687 316407001588 PAAR motif; Region: PAAR_motif; cl15808 316407001589 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407001590 RHS Repeat; Region: RHS_repeat; pfam05593 316407001591 RHS Repeat; Region: RHS_repeat; pfam05593 316407001592 RHS Repeat; Region: RHS_repeat; pfam05593 316407001593 RHS Repeat; Region: RHS_repeat; pfam05593 316407001594 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407001595 RHS Repeat; Region: RHS_repeat; pfam05593 316407001596 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 316407001597 RHS Repeat; Region: RHS_repeat; pfam05593 316407001598 Erythromycin esterase; Region: Erythro_esteras; cl17110 316407001599 RHS protein; Region: RHS; pfam03527 316407001600 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407001601 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 316407001602 NTF2 fold immunity protein; Region: Imm-NTF2-2; pfam15631 316407001603 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407001604 RHS protein; Region: RHS; pfam03527 316407001605 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407001606 hypothetical protein; Provisional; Region: PRK14710 316407001607 Winged helix-turn helix; Region: HTH_29; pfam13551 316407001608 Helix-turn-helix domain; Region: HTH_28; pfam13518 316407001609 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 316407001610 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 316407001611 active site residue [active] 316407001612 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 316407001613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407001614 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 316407001615 dimerization interface [polypeptide binding]; other site 316407001616 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 316407001617 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 316407001618 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407001619 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407001620 glyoxylate carboligase; Provisional; Region: PRK11269 316407001621 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316407001622 PYR/PP interface [polypeptide binding]; other site 316407001623 dimer interface [polypeptide binding]; other site 316407001624 TPP binding site [chemical binding]; other site 316407001625 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316407001626 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 316407001627 TPP-binding site [chemical binding]; other site 316407001628 hydroxypyruvate isomerase; Provisional; Region: PRK09997 316407001629 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 316407001630 tartronate semialdehyde reductase; Provisional; Region: PRK15059 316407001631 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 316407001632 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 316407001633 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 316407001634 Na binding site [ion binding]; other site 316407001635 substrate binding site [chemical binding]; other site 316407001636 allantoinase; Provisional; Region: PRK08044 316407001637 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 316407001638 active site 316407001639 putative uracil/xanthine transporter; Provisional; Region: PRK11412 316407001640 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 316407001641 glycerate kinase II; Provisional; Region: PRK09932 316407001642 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 316407001643 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 316407001644 Cupin domain; Region: Cupin_2; cl17218 316407001645 allantoate amidohydrolase; Region: AllC; TIGR03176 316407001646 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 316407001647 active site 316407001648 metal binding site [ion binding]; metal-binding site 316407001649 dimer interface [polypeptide binding]; other site 316407001650 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 316407001651 membrane protein FdrA; Validated; Region: PRK06091 316407001652 CoA binding domain; Region: CoA_binding; pfam02629 316407001653 CoA-ligase; Region: Ligase_CoA; pfam00549 316407001654 ECK0512:JW0508+JW0507:b4572; hypothetical protein 316407001655 'ECK0512:JW0507:b4507; hypothetical protein, N-ter fragment' 316407001656 'ECK0512:JW0508:b0519; hypothetical protein, C-ter fragment' 316407001657 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 316407001658 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 316407001659 putative substrate binding site [chemical binding]; other site 316407001660 nucleotide binding site [chemical binding]; other site 316407001661 nucleotide binding site [chemical binding]; other site 316407001662 homodimer interface [polypeptide binding]; other site 316407001663 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 316407001664 ATP-grasp domain; Region: ATP-grasp; pfam02222 316407001665 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 316407001666 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 316407001667 putative active site [active] 316407001668 putative metal binding site [ion binding]; other site 316407001669 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 316407001670 substrate binding site [chemical binding]; other site 316407001671 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 316407001672 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 316407001673 active site 316407001674 HIGH motif; other site 316407001675 KMSKS motif; other site 316407001676 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 316407001677 tRNA binding surface [nucleotide binding]; other site 316407001678 anticodon binding site; other site 316407001679 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 316407001680 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 316407001681 RNA binding surface [nucleotide binding]; other site 316407001682 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 316407001683 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 316407001684 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 316407001685 homodimer interface [polypeptide binding]; other site 316407001686 NADP binding site [chemical binding]; other site 316407001687 substrate binding site [chemical binding]; other site 316407001688 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 316407001689 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 316407001690 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407001691 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407001692 outer membrane usher protein FimD; Provisional; Region: PRK15198 316407001693 PapC N-terminal domain; Region: PapC_N; pfam13954 316407001694 Outer membrane usher protein; Region: Usher; pfam00577 316407001695 PapC C-terminal domain; Region: PapC_C; pfam13953 316407001696 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 316407001697 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 316407001698 transcriptional regulator FimZ; Provisional; Region: PRK09935 316407001699 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 316407001700 active site 316407001701 phosphorylation site [posttranslational modification] 316407001702 intermolecular recognition site; other site 316407001703 dimerization interface [polypeptide binding]; other site 316407001704 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 316407001705 DNA binding residues [nucleotide binding] 316407001706 dimerization interface [polypeptide binding]; other site 316407001707 integrase; Provisional; Region: int; PHA02601 316407001708 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 316407001709 Int/Topo IB signature motif; other site 316407001710 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 316407001711 DLP12 prophage region; ECK0532:JW0527:b4508; predicted replication protein fragment 316407001712 Transposase; Region: HTH_Tnp_1; cl17663 316407001713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407001714 putative transposase OrfB; Reviewed; Region: PHA02517 316407001715 HTH-like domain; Region: HTH_21; pfam13276 316407001716 Integrase core domain; Region: rve; pfam00665 316407001717 Integrase core domain; Region: rve_2; pfam13333 316407001718 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 316407001719 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316407001720 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 316407001721 catalytic residues [active] 316407001722 catalytic nucleophile [active] 316407001723 Recombinase; Region: Recombinase; pfam07508 316407001724 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 316407001725 Defensin propeptide; Region: Defensin_propep; pfam00879 316407001726 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 316407001727 substrate binding site [chemical binding]; other site 316407001728 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407001729 hypothetical protein; Provisional; Region: PRK09741 316407001730 prophage protein NinE; Provisional; Region: PRK09689 316407001731 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 316407001732 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 316407001733 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 316407001734 Transposase domain (DUF772); Region: DUF772; pfam05598 316407001735 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407001736 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407001737 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407001738 DLP12 prophage region; ECK0544:JW5078:b0553; truncated outer membrane porin 316407001739 Lysis protein S; Region: Lysis_S; pfam04971 316407001740 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 316407001741 catalytic residues [active] 316407001742 Bacteriophage Rz lysis protein; Region: Phage_lysis; pfam03245 316407001743 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316407001744 Bor protein; Region: Lambda_Bor; pfam06291 316407001745 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316407001746 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316407001747 DLP12 prophage region; ECK0553:JW5815:b0561; predicted tail fiber assembly protein 316407001748 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316407001749 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 316407001750 S-adenosylmethionine binding site [chemical binding]; other site 316407001751 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407001752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407001753 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407001754 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407001755 outer membrane protease; Reviewed; Region: PRK10993 316407001756 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316407001757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407001758 hypothetical protein; Provisional; Region: PRK09936 316407001759 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 316407001760 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 316407001761 TPR motif; other site 316407001762 binding surface 316407001763 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 316407001764 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 316407001765 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 316407001766 active site 316407001767 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 316407001768 sensor kinase CusS; Provisional; Region: PRK09835 316407001769 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 316407001770 dimerization interface [polypeptide binding]; other site 316407001771 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 316407001772 dimer interface [polypeptide binding]; other site 316407001773 phosphorylation site [posttranslational modification] 316407001774 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 316407001775 ATP binding site [chemical binding]; other site 316407001776 Mg2+ binding site [ion binding]; other site 316407001777 G-X-G motif; other site 316407001778 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 316407001779 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 316407001780 active site 316407001781 phosphorylation site [posttranslational modification] 316407001782 intermolecular recognition site; other site 316407001783 dimerization interface [polypeptide binding]; other site 316407001784 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 316407001785 DNA binding site [nucleotide binding] 316407001786 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 316407001787 Outer membrane efflux protein; Region: OEP; pfam02321 316407001788 Outer membrane efflux protein; Region: OEP; pfam02321 316407001789 periplasmic copper-binding protein; Provisional; Region: PRK09838 316407001790 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 316407001791 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407001792 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 316407001793 phenylalanine transporter; Provisional; Region: PRK10249 316407001794 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407001795 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316407001796 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407001797 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 316407001798 dimer interface [polypeptide binding]; other site 316407001799 FMN binding site [chemical binding]; other site 316407001800 hypothetical protein; Provisional; Region: PRK10250 316407001801 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 316407001802 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 316407001803 Hok/gef family; Region: HOK_GEF; pfam01848 316407001804 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316407001805 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407001806 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 316407001807 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 316407001808 outer membrane receptor FepA; Provisional; Region: PRK13524 316407001809 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 316407001810 N-terminal plug; other site 316407001811 ligand-binding site [chemical binding]; other site 316407001812 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 316407001813 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 316407001814 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 316407001815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 316407001816 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 316407001817 Condensation domain; Region: Condensation; pfam00668 316407001818 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 316407001819 acyl-activating enzyme (AAE) consensus motif; other site 316407001820 AMP binding site [chemical binding]; other site 316407001821 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 316407001822 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 316407001823 LPS O-antigen length regulator; Provisional; Region: PRK10381 316407001824 Chain length determinant protein; Region: Wzz; pfam02706 316407001825 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407001826 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 316407001827 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316407001828 Walker A/P-loop; other site 316407001829 ATP binding site [chemical binding]; other site 316407001830 Q-loop/lid; other site 316407001831 ABC transporter signature motif; other site 316407001832 Walker B; other site 316407001833 D-loop; other site 316407001834 H-loop/switch region; other site 316407001835 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 316407001836 ABC-ATPase subunit interface; other site 316407001837 dimer interface [polypeptide binding]; other site 316407001838 putative PBP binding regions; other site 316407001839 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 316407001840 ABC-ATPase subunit interface; other site 316407001841 dimer interface [polypeptide binding]; other site 316407001842 putative PBP binding regions; other site 316407001843 enterobactin exporter EntS; Provisional; Region: PRK10489 316407001844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407001845 putative substrate translocation pore; other site 316407001846 ABC-type Fe2+-enterobactin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG4592 316407001847 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 316407001848 siderophore binding site; other site 316407001849 isochorismate synthase EntC; Provisional; Region: PRK15016 316407001850 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316407001851 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 316407001852 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 316407001853 acyl-activating enzyme (AAE) consensus motif; other site 316407001854 active site 316407001855 AMP binding site [chemical binding]; other site 316407001856 substrate binding site [chemical binding]; other site 316407001857 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 316407001858 hydrophobic substrate binding pocket; other site 316407001859 active site 316407001860 conserved cis-peptide bond; other site 316407001861 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 316407001862 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 316407001863 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 316407001864 putative NAD(P) binding site [chemical binding]; other site 316407001865 active site 316407001866 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 316407001867 CoenzymeA binding site [chemical binding]; other site 316407001868 subunit interaction site [polypeptide binding]; other site 316407001869 PHB binding site; other site 316407001870 carbon starvation protein A; Provisional; Region: PRK15015 316407001871 Carbon starvation protein CstA; Region: CstA; pfam02554 316407001872 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 316407001873 Uncharacterized small protein [Function unknown]; Region: COG2879 316407001874 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 316407001875 putative active site [active] 316407001876 metal binding site [ion binding]; metal-binding site 316407001877 methionine aminotransferase; Validated; Region: PRK09082 316407001878 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 316407001879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407001880 homodimer interface [polypeptide binding]; other site 316407001881 catalytic residue [active] 316407001882 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 316407001883 ParB-like nuclease domain; Region: ParBc; pfam02195 316407001884 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 316407001885 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 316407001886 Active Sites [active] 316407001887 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 316407001888 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316407001889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407001890 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 316407001891 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 316407001892 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 316407001893 dimerization domain [polypeptide binding]; other site 316407001894 dimer interface [polypeptide binding]; other site 316407001895 catalytic residues [active] 316407001896 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 316407001897 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 316407001898 dimer interface [polypeptide binding]; other site 316407001899 decamer (pentamer of dimers) interface [polypeptide binding]; other site 316407001900 catalytic triad [active] 316407001901 peroxidatic and resolving cysteines [active] 316407001902 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 316407001903 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 316407001904 catalytic residue [active] 316407001905 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 316407001906 catalytic residues [active] 316407001907 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407001908 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407001909 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 316407001910 Ligand Binding Site [chemical binding]; other site 316407001911 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 316407001912 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407001913 NAD binding site [chemical binding]; other site 316407001914 catalytic Zn binding site [ion binding]; other site 316407001915 structural Zn binding site [ion binding]; other site 316407001916 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 316407001917 Rnk N-terminus; Region: Rnk_N; pfam14760 316407001918 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316407001919 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 316407001920 B1 nucleotide binding pocket [chemical binding]; other site 316407001921 B2 nucleotide binding pocket [chemical binding]; other site 316407001922 CAS motifs; other site 316407001923 active site 316407001924 anion transporter; Region: dass; TIGR00785 316407001925 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 316407001926 transmembrane helices; other site 316407001927 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 316407001928 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 316407001929 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 316407001930 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 316407001931 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 316407001932 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 316407001933 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 316407001934 putative active site [active] 316407001935 (T/H)XGH motif; other site 316407001936 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 316407001937 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 316407001938 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 316407001939 putative active site [active] 316407001940 heme pocket [chemical binding]; other site 316407001941 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 316407001942 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 316407001943 ATP binding site [chemical binding]; other site 316407001944 Mg2+ binding site [ion binding]; other site 316407001945 G-X-G motif; other site 316407001946 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 316407001947 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 316407001948 active site 316407001949 phosphorylation site [posttranslational modification] 316407001950 intermolecular recognition site; other site 316407001951 dimerization interface [polypeptide binding]; other site 316407001952 Transcriptional regulator; Region: CitT; pfam12431 316407001953 'ECK0614:JW0613+JW0616:b0621; IS is inserted, intact dcuC is found in strain MG1655' 316407001954 Transposase domain (DUF772); Region: DUF772; pfam05598 316407001955 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407001956 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407001957 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407001958 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 316407001959 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 316407001960 DNA-binding site [nucleotide binding]; DNA binding site 316407001961 RNA-binding motif; other site 316407001962 chromosome condensation membrane protein; Provisional; Region: PRK14196 316407001963 potential frameshift: common BLAST hit: gi|386708409|ref|YP_006172130.1| putative amidase 316407001964 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 316407001965 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 316407001966 active site 316407001967 catalytic triad [active] 316407001968 dimer interface [polypeptide binding]; other site 316407001969 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 316407001970 lipoyl synthase; Provisional; Region: PRK05481 316407001971 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 316407001972 FeS/SAM binding site; other site 316407001973 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 316407001974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407001975 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 316407001976 dimerization interface [polypeptide binding]; other site 316407001977 lipoate-protein ligase B; Provisional; Region: PRK14342 316407001978 hypothetical protein; Provisional; Region: PRK04998 316407001979 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 316407001980 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316407001981 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316407001982 rare lipoprotein A; Provisional; Region: PRK10672 316407001983 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 316407001984 Sporulation related domain; Region: SPOR; pfam05036 316407001985 cell wall shape-determining protein; Provisional; Region: PRK10794 316407001986 penicillin-binding protein 2; Provisional; Region: PRK10795 316407001987 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 316407001988 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 316407001989 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 316407001990 ribosome-associated protein; Provisional; Region: PRK11538 316407001991 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 316407001992 catalytic core [active] 316407001993 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 316407001994 active site 316407001995 (T/H)XGH motif; other site 316407001996 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 316407001997 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 316407001998 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 316407001999 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 316407002000 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 316407002001 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 316407002002 active site 316407002003 HIGH motif; other site 316407002004 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316407002005 KMSKS motif; other site 316407002006 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 316407002007 tRNA binding surface [nucleotide binding]; other site 316407002008 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 316407002009 hypothetical protein; Provisional; Region: PRK11032 316407002010 Sel1-like repeats; Region: SEL1; smart00671 316407002011 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316407002012 Sel1-like repeats; Region: SEL1; smart00671 316407002013 Sel1-like repeats; Region: SEL1; smart00671 316407002014 Sel1-like repeats; Region: SEL1; smart00671 316407002015 Sel1-like repeats; Region: SEL1; smart00671 316407002016 Sel1-like repeats; Region: SEL1; smart00671 316407002017 Sel1-like repeats; Region: SEL1; smart00671 316407002018 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316407002019 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 316407002020 HSP70 interaction site [polypeptide binding]; other site 316407002021 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316407002022 Sel1-like repeats; Region: SEL1; smart00671 316407002023 Sel1-like repeats; Region: SEL1; smart00671 316407002024 Sel1-like repeats; Region: SEL1; smart00671 316407002025 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 316407002026 DnaJ domain; Region: DnaJ; pfam00226 316407002027 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 316407002028 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 316407002029 nucleotide binding site [chemical binding]; other site 316407002030 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316407002031 SBD interface [polypeptide binding]; other site 316407002032 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 316407002033 active site 316407002034 tetramer interface [polypeptide binding]; other site 316407002035 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316407002036 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316407002037 Walker A/P-loop; other site 316407002038 ATP binding site [chemical binding]; other site 316407002039 Q-loop/lid; other site 316407002040 ABC transporter signature motif; other site 316407002041 Walker B; other site 316407002042 D-loop; other site 316407002043 H-loop/switch region; other site 316407002044 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 316407002045 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 316407002046 dimer interface [polypeptide binding]; other site 316407002047 conserved gate region; other site 316407002048 putative PBP binding loops; other site 316407002049 ABC-ATPase subunit interface; other site 316407002050 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 316407002051 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 316407002052 dimer interface [polypeptide binding]; other site 316407002053 conserved gate region; other site 316407002054 putative PBP binding loops; other site 316407002055 ABC-ATPase subunit interface; other site 316407002056 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316407002057 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 316407002058 substrate binding pocket [chemical binding]; other site 316407002059 membrane-bound complex binding site; other site 316407002060 hinge residues; other site 316407002061 Transposase domain (DUF772); Region: DUF772; pfam05598 316407002062 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407002063 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407002064 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407002065 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 316407002066 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 316407002067 putative active site [active] 316407002068 catalytic triad [active] 316407002069 putative dimer interface [polypeptide binding]; other site 316407002070 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 316407002071 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 316407002072 Transporter associated domain; Region: CorC_HlyC; smart01091 316407002073 metal-binding heat shock protein; Provisional; Region: PRK00016 316407002074 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316407002075 PhoH-like protein; Region: PhoH; pfam02562 316407002076 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 316407002077 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316407002078 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 316407002079 FeS/SAM binding site; other site 316407002080 TRAM domain; Region: TRAM; pfam01938 316407002081 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 316407002082 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 316407002083 asparagine synthetase B; Provisional; Region: asnB; PRK09431 316407002084 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 316407002085 active site 316407002086 dimer interface [polypeptide binding]; other site 316407002087 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 316407002088 Ligand Binding Site [chemical binding]; other site 316407002089 Molecular Tunnel; other site 316407002090 UMP phosphatase; Provisional; Region: PRK10444 316407002091 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 316407002092 active site 316407002093 motif I; other site 316407002094 motif II; other site 316407002095 MarR family; Region: MarR_2; cl17246 316407002096 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407002097 ROK family; Region: ROK; pfam00480 316407002098 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 316407002099 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 316407002100 active site 316407002101 dimer interface [polypeptide binding]; other site 316407002102 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 316407002103 active site 316407002104 trimer interface [polypeptide binding]; other site 316407002105 allosteric site; other site 316407002106 active site lid [active] 316407002107 hexamer (dimer of trimers) interface [polypeptide binding]; other site 316407002108 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 316407002109 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407002110 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 316407002111 active site turn [active] 316407002112 phosphorylation site [posttranslational modification] 316407002113 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 316407002114 HPr interaction site; other site 316407002115 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316407002116 active site 316407002117 phosphorylation site [posttranslational modification] 316407002118 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 316407002119 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 316407002120 active site 316407002121 HIGH motif; other site 316407002122 KMSKS motif; other site 316407002123 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 316407002124 outer membrane porin, OprD family; Region: OprD; pfam03573 316407002125 YbfN-like lipoprotein; Region: YbfN; pfam13982 316407002126 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316407002127 metal binding site 2 [ion binding]; metal-binding site 316407002128 putative DNA binding helix; other site 316407002129 metal binding site 1 [ion binding]; metal-binding site 316407002130 dimer interface [polypeptide binding]; other site 316407002131 structural Zn2+ binding site [ion binding]; other site 316407002132 flavodoxin FldA; Validated; Region: PRK09267 316407002133 LexA regulated protein; Provisional; Region: PRK11675 316407002134 acyl-CoA esterase; Provisional; Region: PRK10673 316407002135 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 316407002136 replication initiation regulator SeqA; Provisional; Region: PRK11187 316407002137 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 316407002138 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 316407002139 active site 316407002140 substrate binding site [chemical binding]; other site 316407002141 metal binding site [ion binding]; metal-binding site 316407002142 Protein of unknown function DUF2625; Region: DUF2625; cl08177 316407002143 Protein of unknown function DUF2625; Region: DUF2625; cl08177 316407002144 putrescine transporter; Provisional; Region: potE; PRK10655 316407002145 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 316407002146 ornithine decarboxylase; Provisional; Region: PRK13578 316407002147 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316407002148 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 316407002149 homodimer interface [polypeptide binding]; other site 316407002150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407002151 catalytic residue [active] 316407002152 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316407002153 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 316407002154 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 316407002155 active site 316407002156 phosphorylation site [posttranslational modification] 316407002157 intermolecular recognition site; other site 316407002158 dimerization interface [polypeptide binding]; other site 316407002159 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 316407002160 DNA binding site [nucleotide binding] 316407002161 sensor protein KdpD; Provisional; Region: PRK10490 316407002162 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 316407002163 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 316407002164 Ligand Binding Site [chemical binding]; other site 316407002165 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 316407002166 GAF domain; Region: GAF_3; pfam13492 316407002167 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 316407002168 dimer interface [polypeptide binding]; other site 316407002169 phosphorylation site [posttranslational modification] 316407002170 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 316407002171 ATP binding site [chemical binding]; other site 316407002172 Mg2+ binding site [ion binding]; other site 316407002173 G-X-G motif; other site 316407002174 K+-transporting ATPase, c chain; Region: KdpC; pfam02669 316407002175 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 316407002176 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316407002177 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316407002178 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 316407002179 potassium-transporting ATPase subunit F; Provisional; Region: kdpF; PRK14748 316407002180 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 316407002181 PAAR motif; Region: PAAR_motif; cl15808 316407002182 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407002183 RHS Repeat; Region: RHS_repeat; pfam05593 316407002184 RHS Repeat; Region: RHS_repeat; pfam05593 316407002185 RHS Repeat; Region: RHS_repeat; pfam05593 316407002186 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407002187 RHS Repeat; Region: RHS_repeat; pfam05593 316407002188 RHS Repeat; Region: RHS_repeat; pfam05593 316407002189 RHS protein; Region: RHS; pfam03527 316407002190 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407002191 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407002192 RHS Repeat; Region: RHS_repeat; pfam05593 316407002193 RHS protein; Region: RHS; pfam03527 316407002194 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407002195 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316407002196 ECK0694:JW0695:b0705; predicted transposase 316407002197 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316407002198 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407002199 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407002200 hypothetical protein; Provisional; Region: PRK10167 316407002201 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 316407002202 DNA photolyase; Region: DNA_photolyase; pfam00875 316407002203 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 316407002204 dipeptide/tripeptide permease D; Provisional; Region: PRK15462 316407002205 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316407002206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407002207 putative substrate translocation pore; other site 316407002208 metal-binding protein; Provisional; Region: PRK10799 316407002209 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 316407002210 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 316407002211 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 316407002212 putative active site [active] 316407002213 endonuclease VIII; Provisional; Region: PRK10445 316407002214 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 316407002215 DNA binding site [nucleotide binding] 316407002216 catalytic residue [active] 316407002217 putative catalytic residues [active] 316407002218 H2TH interface [polypeptide binding]; other site 316407002219 intercalation triad [nucleotide binding]; other site 316407002220 substrate specificity determining residue; other site 316407002221 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316407002222 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316407002223 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 316407002224 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316407002225 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 316407002226 Fimbrial protein; Region: Fimbrial; pfam00419 316407002227 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316407002228 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407002229 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407002230 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316407002231 PapC N-terminal domain; Region: PapC_N; pfam13954 316407002232 Outer membrane usher protein; Region: Usher; pfam00577 316407002233 PapC C-terminal domain; Region: PapC_C; pfam13953 316407002234 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407002235 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 316407002236 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 316407002237 dimer interface [polypeptide binding]; other site 316407002238 active site 316407002239 citrylCoA binding site [chemical binding]; other site 316407002240 NADH binding [chemical binding]; other site 316407002241 cationic pore residues; other site 316407002242 oxalacetate/citrate binding site [chemical binding]; other site 316407002243 coenzyme A binding site [chemical binding]; other site 316407002244 catalytic triad [active] 316407002245 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 316407002246 Iron-sulfur protein interface; other site 316407002247 proximal quinone binding site [chemical binding]; other site 316407002248 SdhD (CybS) interface [polypeptide binding]; other site 316407002249 proximal heme binding site [chemical binding]; other site 316407002250 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 316407002251 SdhC subunit interface [polypeptide binding]; other site 316407002252 proximal heme binding site [chemical binding]; other site 316407002253 cardiolipin binding site; other site 316407002254 Iron-sulfur protein interface; other site 316407002255 proximal quinone binding site [chemical binding]; other site 316407002256 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 316407002257 L-aspartate oxidase; Provisional; Region: PRK06175 316407002258 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316407002259 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 316407002260 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316407002261 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 316407002262 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 316407002263 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 316407002264 TPP-binding site [chemical binding]; other site 316407002265 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 316407002266 dimer interface [polypeptide binding]; other site 316407002267 PYR/PP interface [polypeptide binding]; other site 316407002268 TPP binding site [chemical binding]; other site 316407002269 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 316407002270 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 316407002271 E3 interaction surface; other site 316407002272 lipoyl attachment site [posttranslational modification]; other site 316407002273 e3 binding domain; Region: E3_binding; pfam02817 316407002274 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 316407002275 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 316407002276 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 316407002277 CoA-ligase; Region: Ligase_CoA; pfam00549 316407002278 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 316407002279 CoA binding domain; Region: CoA_binding; pfam02629 316407002280 CoA-ligase; Region: Ligase_CoA; pfam00549 316407002281 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 316407002282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407002283 DNA-binding site [nucleotide binding]; DNA binding site 316407002284 UTRA domain; Region: UTRA; pfam07702 316407002285 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 316407002286 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 316407002287 active site 316407002288 phosphorylation site [posttranslational modification] 316407002289 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 316407002290 active site 316407002291 P-loop; other site 316407002292 phosphorylation site [posttranslational modification] 316407002293 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316407002294 alpha-mannosidase; Provisional; Region: PRK09819 316407002295 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 316407002296 active site 316407002297 metal binding site [ion binding]; metal-binding site 316407002298 catalytic site [active] 316407002299 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 316407002300 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 316407002301 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 316407002302 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 316407002303 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 316407002304 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 316407002305 hypothetical protein; Provisional; Region: PRK10588 316407002306 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 316407002307 active site 316407002308 colicin uptake protein TolQ; Provisional; Region: PRK10801 316407002309 colicin uptake protein TolR; Provisional; Region: PRK11024 316407002310 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 316407002311 Double-stranded DNA-binding domain; Region: dsDNA_bind; cl00928 316407002312 TolA C-terminal; Region: TolA; pfam06519 316407002313 translocation protein TolB; Provisional; Region: tolB; PRK03629 316407002314 TolB amino-terminal domain; Region: TolB_N; pfam04052 316407002315 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316407002316 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316407002317 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 316407002318 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 316407002319 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316407002320 ligand binding site [chemical binding]; other site 316407002321 tol-pal system protein YbgF; Provisional; Region: PRK10803 316407002322 Tetratricopeptide repeat; Region: TPR_6; pfam13174 316407002323 Tetratricopeptide repeat; Region: TPR_6; pfam13174 316407002324 quinolinate synthetase; Provisional; Region: PRK09375 316407002325 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 316407002326 zinc transporter ZitB; Provisional; Region: PRK03557 316407002327 YbgS-like protein; Region: YbgS; pfam13985 316407002328 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 316407002329 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 316407002330 catalytic core [active] 316407002331 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 316407002332 active site 316407002333 catalytic residues [active] 316407002334 galactokinase; Provisional; Region: PRK05101 316407002335 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 316407002336 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 316407002337 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 316407002338 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 316407002339 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 316407002340 dimer interface [polypeptide binding]; other site 316407002341 active site 316407002342 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 316407002343 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 316407002344 NAD binding site [chemical binding]; other site 316407002345 homodimer interface [polypeptide binding]; other site 316407002346 active site 316407002347 substrate binding site [chemical binding]; other site 316407002348 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 316407002349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 316407002350 Walker A/P-loop; other site 316407002351 ATP binding site [chemical binding]; other site 316407002352 Q-loop/lid; other site 316407002353 ABC transporter signature motif; other site 316407002354 Walker B; other site 316407002355 D-loop; other site 316407002356 H-loop/switch region; other site 316407002357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002358 Walker A/P-loop; other site 316407002359 ATP binding site [chemical binding]; other site 316407002360 Q-loop/lid; other site 316407002361 ABC transporter signature motif; other site 316407002362 Walker B; other site 316407002363 D-loop; other site 316407002364 H-loop/switch region; other site 316407002365 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 316407002366 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 316407002367 molybdenum-pterin binding domain; Region: Mop; TIGR00638 316407002368 TOBE domain; Region: TOBE; pfam03459 316407002369 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 316407002370 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 316407002371 substrate binding pocket [chemical binding]; other site 316407002372 membrane-bound complex binding site; other site 316407002373 hinge residues; other site 316407002374 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316407002375 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 316407002376 dimer interface [polypeptide binding]; other site 316407002377 conserved gate region; other site 316407002378 putative PBP binding loops; other site 316407002379 ABC-ATPase subunit interface; other site 316407002380 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 316407002381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002382 Walker A/P-loop; other site 316407002383 ATP binding site [chemical binding]; other site 316407002384 Q-loop/lid; other site 316407002385 ABC transporter signature motif; other site 316407002386 Walker B; other site 316407002387 D-loop; other site 316407002388 H-loop/switch region; other site 316407002389 molybdenum-pterin binding domain; Region: Mop; TIGR00638 316407002390 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 316407002391 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 316407002392 active site 316407002393 motif I; other site 316407002394 motif II; other site 316407002395 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407002396 6-phosphogluconolactonase; Provisional; Region: PRK11028 316407002397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407002398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407002399 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 316407002400 putative dimerization interface [polypeptide binding]; other site 316407002401 PrpF protein; Region: PrpF; pfam04303 316407002402 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 316407002403 anion transporter; Region: dass; TIGR00785 316407002404 transmembrane helices; other site 316407002405 putative hydratase; Provisional; Region: PRK11413 316407002406 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 316407002407 substrate binding site [chemical binding]; other site 316407002408 ligand binding site [chemical binding]; other site 316407002409 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 316407002410 substrate binding site [chemical binding]; other site 316407002411 acyl-CoA thioesterase; Provisional; Region: PRK10531 316407002412 Pectinesterase; Region: Pectinesterase; cl01911 316407002413 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 316407002414 substrate binding site [chemical binding]; other site 316407002415 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407002416 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 316407002417 inhibitor-cofactor binding pocket; inhibition site 316407002418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407002419 catalytic residue [active] 316407002420 biotin synthase; Provisional; Region: PRK15108 316407002421 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 316407002422 FeS/SAM binding site; other site 316407002423 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 316407002424 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 316407002425 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 316407002426 substrate-cofactor binding pocket; other site 316407002427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407002428 catalytic residue [active] 316407002429 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 316407002430 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 316407002431 S-adenosylmethionine binding site [chemical binding]; other site 316407002432 AAA domain; Region: AAA_26; pfam13500 316407002433 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 316407002434 active site 316407002435 ADP binding site [chemical binding]; other site 316407002436 excinuclease ABC subunit B; Provisional; Region: PRK05298 316407002437 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 316407002438 ATP binding site [chemical binding]; other site 316407002439 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 316407002440 nucleotide binding region [chemical binding]; other site 316407002441 ATP-binding site [chemical binding]; other site 316407002442 Ultra-violet resistance protein B; Region: UvrB; pfam12344 316407002443 UvrB/uvrC motif; Region: UVR; pfam02151 316407002444 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 316407002445 phosphate binding site [ion binding]; other site 316407002446 putative substrate binding pocket [chemical binding]; other site 316407002447 dimer interface [polypeptide binding]; other site 316407002448 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 316407002449 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 316407002450 FeS/SAM binding site; other site 316407002451 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 316407002452 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 316407002453 MPT binding site; other site 316407002454 trimer interface [polypeptide binding]; other site 316407002455 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 316407002456 trimer interface [polypeptide binding]; other site 316407002457 dimer interface [polypeptide binding]; other site 316407002458 putative active site [active] 316407002459 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 316407002460 MoaE interaction surface [polypeptide binding]; other site 316407002461 MoeB interaction surface [polypeptide binding]; other site 316407002462 thiocarboxylated glycine; other site 316407002463 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 316407002464 MoaE homodimer interface [polypeptide binding]; other site 316407002465 MoaD interaction [polypeptide binding]; other site 316407002466 active site residues [active] 316407002467 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316407002468 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 316407002469 Predicted integral membrane protein [Function unknown]; Region: COG0392 316407002470 cardiolipin synthase 2; Provisional; Region: PRK11263 316407002471 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 316407002472 putative active site [active] 316407002473 catalytic site [active] 316407002474 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 316407002475 putative active site [active] 316407002476 catalytic site [active] 316407002477 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 316407002478 putative catalytic site [active] 316407002479 putative metal binding site [ion binding]; other site 316407002480 putative phosphate binding site [ion binding]; other site 316407002481 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 316407002482 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316407002483 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316407002484 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316407002485 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 316407002486 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 316407002487 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316407002488 Walker A/P-loop; other site 316407002489 ATP binding site [chemical binding]; other site 316407002490 Q-loop/lid; other site 316407002491 ABC transporter signature motif; other site 316407002492 Walker B; other site 316407002493 D-loop; other site 316407002494 H-loop/switch region; other site 316407002495 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 316407002496 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316407002497 Walker A/P-loop; other site 316407002498 ATP binding site [chemical binding]; other site 316407002499 Q-loop/lid; other site 316407002500 ABC transporter signature motif; other site 316407002501 Walker B; other site 316407002502 D-loop; other site 316407002503 H-loop/switch region; other site 316407002504 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 316407002505 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407002506 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407002507 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 316407002508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407002509 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 316407002510 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 316407002511 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 316407002512 ATP binding site [chemical binding]; other site 316407002513 Mg++ binding site [ion binding]; other site 316407002514 motif III; other site 316407002515 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 316407002516 nucleotide binding region [chemical binding]; other site 316407002517 ATP-binding site [chemical binding]; other site 316407002518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 316407002519 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 316407002520 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 316407002521 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 316407002522 glycosyl transferase family protein; Provisional; Region: PRK08136 316407002523 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316407002524 putative dehydrogenase; Provisional; Region: PRK10098 316407002525 hypothetical protein; Provisional; Region: PRK10259 316407002526 hypothetical protein; Provisional; Region: PRK11019 316407002527 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 316407002528 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 316407002529 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 316407002530 N-terminal plug; other site 316407002531 ligand-binding site [chemical binding]; other site 316407002532 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 316407002533 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 316407002534 putative mechanosensitive channel protein; Provisional; Region: PRK11465 316407002535 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407002536 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 316407002537 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316407002538 Walker A/P-loop; other site 316407002539 ATP binding site [chemical binding]; other site 316407002540 Q-loop/lid; other site 316407002541 ABC transporter signature motif; other site 316407002542 Walker B; other site 316407002543 D-loop; other site 316407002544 H-loop/switch region; other site 316407002545 glutamine ABC transporter permease protein; Reviewed; Region: glnP; PRK09494 316407002546 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 316407002547 dimer interface [polypeptide binding]; other site 316407002548 conserved gate region; other site 316407002549 putative PBP binding loops; other site 316407002550 ABC-ATPase subunit interface; other site 316407002551 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 316407002552 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 316407002553 substrate binding pocket [chemical binding]; other site 316407002554 membrane-bound complex binding site; other site 316407002555 hinge residues; other site 316407002556 Ferritin-like domain; Region: Ferritin; pfam00210 316407002557 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 316407002558 dimerization interface [polypeptide binding]; other site 316407002559 DPS ferroxidase diiron center [ion binding]; other site 316407002560 ion pore; other site 316407002561 threonine and homoserine efflux system; Provisional; Region: PRK10532 316407002562 EamA-like transporter family; Region: EamA; pfam00892 316407002563 outer membrane protein X; Provisional; Region: ompX; PRK09408 316407002564 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 316407002565 Sulfatase; Region: Sulfatase; pfam00884 316407002566 manganese transport regulator MntR; Provisional; Region: PRK11050 316407002567 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 316407002568 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 316407002569 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316407002570 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 316407002571 transmembrane helices; other site 316407002572 L,D-transpeptidase; Provisional; Region: PRK10260 316407002573 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407002574 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 316407002575 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407002576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002577 Walker A/P-loop; other site 316407002578 ATP binding site [chemical binding]; other site 316407002579 ABC transporter signature motif; other site 316407002580 Walker B; other site 316407002581 ABC transporter; Region: ABC_tran_2; pfam12848 316407002582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407002583 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 316407002584 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 316407002585 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 316407002586 active site 316407002587 motif I; other site 316407002588 motif II; other site 316407002589 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407002590 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 316407002591 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 316407002592 dimer interface [polypeptide binding]; other site 316407002593 active site 316407002594 glycine loop; other site 316407002595 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 316407002596 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 316407002597 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 316407002598 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 316407002599 active site 316407002600 intersubunit interactions; other site 316407002601 catalytic residue [active] 316407002602 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 316407002603 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 316407002604 ATP binding site [chemical binding]; other site 316407002605 substrate interface [chemical binding]; other site 316407002606 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 316407002607 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 316407002608 dimer interface [polypeptide binding]; other site 316407002609 putative functional site; other site 316407002610 putative MPT binding site; other site 316407002611 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 316407002612 catalytic nucleophile [active] 316407002613 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 316407002614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407002615 Walker A/P-loop; other site 316407002616 ATP binding site [chemical binding]; other site 316407002617 Q-loop/lid; other site 316407002618 ABC transporter signature motif; other site 316407002619 Walker B; other site 316407002620 D-loop; other site 316407002621 H-loop/switch region; other site 316407002622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407002623 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407002624 Walker A/P-loop; other site 316407002625 ATP binding site [chemical binding]; other site 316407002626 Q-loop/lid; other site 316407002627 ABC transporter signature motif; other site 316407002628 Walker B; other site 316407002629 D-loop; other site 316407002630 H-loop/switch region; other site 316407002631 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316407002632 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316407002633 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 316407002634 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 316407002635 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 316407002636 dimer interface [polypeptide binding]; other site 316407002637 conserved gate region; other site 316407002638 putative PBP binding loops; other site 316407002639 ABC-ATPase subunit interface; other site 316407002640 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 316407002641 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316407002642 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 316407002643 dimer interface [polypeptide binding]; other site 316407002644 conserved gate region; other site 316407002645 putative PBP binding loops; other site 316407002646 ABC-ATPase subunit interface; other site 316407002647 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 316407002648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407002649 metal binding site [ion binding]; metal-binding site 316407002650 active site 316407002651 I-site; other site 316407002652 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 316407002653 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 316407002654 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 316407002655 FeS/SAM binding site; other site 316407002656 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 316407002657 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 316407002658 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 316407002659 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316407002660 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 316407002661 putative C-terminal domain interface [polypeptide binding]; other site 316407002662 putative GSH binding site (G-site) [chemical binding]; other site 316407002663 putative dimer interface [polypeptide binding]; other site 316407002664 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316407002665 N-terminal domain interface [polypeptide binding]; other site 316407002666 dimer interface [polypeptide binding]; other site 316407002667 substrate binding pocket (H-site) [chemical binding]; other site 316407002668 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 316407002669 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316407002670 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316407002671 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 316407002672 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407002673 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407002674 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316407002675 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 316407002676 active site 316407002677 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 316407002678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407002679 putative substrate translocation pore; other site 316407002680 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 316407002681 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 316407002682 active site 316407002683 motif I; other site 316407002684 motif II; other site 316407002685 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 316407002686 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407002687 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 316407002688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407002689 putative substrate translocation pore; other site 316407002690 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 316407002691 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407002692 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 316407002693 putative transporter; Provisional; Region: PRK04972 316407002694 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 316407002695 TrkA-C domain; Region: TrkA_C; pfam02080 316407002696 TrkA-C domain; Region: TrkA_C; pfam02080 316407002697 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 316407002698 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 316407002699 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 316407002700 GSH binding site [chemical binding]; other site 316407002701 catalytic residues [active] 316407002702 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 316407002703 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 316407002704 dimer interface [polypeptide binding]; other site 316407002705 FMN binding site [chemical binding]; other site 316407002706 NADPH bind site [chemical binding]; other site 316407002707 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 316407002708 RimK-like ATP-grasp domain; Region: RimK; pfam08443 316407002709 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 316407002710 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 316407002711 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 316407002712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002713 Walker A/P-loop; other site 316407002714 ATP binding site [chemical binding]; other site 316407002715 Q-loop/lid; other site 316407002716 ABC transporter signature motif; other site 316407002717 Walker B; other site 316407002718 D-loop; other site 316407002719 H-loop/switch region; other site 316407002720 TOBE domain; Region: TOBE_2; pfam08402 316407002721 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 316407002722 dimer interface [polypeptide binding]; other site 316407002723 conserved gate region; other site 316407002724 putative PBP binding loops; other site 316407002725 ABC-ATPase subunit interface; other site 316407002726 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316407002727 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 316407002728 dimer interface [polypeptide binding]; other site 316407002729 conserved gate region; other site 316407002730 putative PBP binding loops; other site 316407002731 ABC-ATPase subunit interface; other site 316407002732 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 316407002733 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 316407002734 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 316407002735 S-adenosylmethionine binding site [chemical binding]; other site 316407002736 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 316407002737 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 316407002738 substrate binding pocket [chemical binding]; other site 316407002739 membrane-bound complex binding site; other site 316407002740 hinge residues; other site 316407002741 arginine transporter permease subunit ArtM; Provisional; Region: artM; PRK11122 316407002742 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 316407002743 dimer interface [polypeptide binding]; other site 316407002744 conserved gate region; other site 316407002745 putative PBP binding loops; other site 316407002746 ABC-ATPase subunit interface; other site 316407002747 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316407002748 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 316407002749 dimer interface [polypeptide binding]; other site 316407002750 conserved gate region; other site 316407002751 putative PBP binding loops; other site 316407002752 ABC-ATPase subunit interface; other site 316407002753 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 316407002754 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 316407002755 substrate binding pocket [chemical binding]; other site 316407002756 membrane-bound complex binding site; other site 316407002757 hinge residues; other site 316407002758 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 316407002759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002760 Walker A/P-loop; other site 316407002761 ATP binding site [chemical binding]; other site 316407002762 Q-loop/lid; other site 316407002763 ABC transporter signature motif; other site 316407002764 Walker B; other site 316407002765 D-loop; other site 316407002766 H-loop/switch region; other site 316407002767 putative lipoprotein; Provisional; Region: PRK10533 316407002768 hypothetical protein; Provisional; Region: PRK02877 316407002769 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 316407002770 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 316407002771 amidase catalytic site [active] 316407002772 Zn binding residues [ion binding]; other site 316407002773 substrate binding site [chemical binding]; other site 316407002774 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 316407002775 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316407002776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316407002777 NAD(P) binding site [chemical binding]; other site 316407002778 active site 316407002779 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316407002780 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 316407002781 putative NAD(P) binding site [chemical binding]; other site 316407002782 putative active site [active] 316407002783 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 316407002784 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 316407002785 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 316407002786 tetramer interface [polypeptide binding]; other site 316407002787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407002788 catalytic residue [active] 316407002789 pyruvate dehydrogenase; Provisional; Region: PRK09124 316407002790 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 316407002791 PYR/PP interface [polypeptide binding]; other site 316407002792 dimer interface [polypeptide binding]; other site 316407002793 tetramer interface [polypeptide binding]; other site 316407002794 TPP binding site [chemical binding]; other site 316407002795 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316407002796 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 316407002797 TPP-binding site [chemical binding]; other site 316407002798 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 316407002799 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 316407002800 FAD binding pocket [chemical binding]; other site 316407002801 FAD binding motif [chemical binding]; other site 316407002802 phosphate binding motif [ion binding]; other site 316407002803 beta-alpha-beta structure motif; other site 316407002804 NAD binding pocket [chemical binding]; other site 316407002805 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 316407002806 catalytic loop [active] 316407002807 iron binding site [ion binding]; other site 316407002808 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 316407002809 cubane metal cluster [ion binding]; other site 316407002810 hybrid metal cluster; other site 316407002811 Predicted membrane protein [Function unknown]; Region: COG2431 316407002812 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 316407002813 amphipathic channel; other site 316407002814 Asn-Pro-Ala signature motifs; other site 316407002815 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 316407002816 AAA domain; Region: AAA_21; pfam13304 316407002817 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 316407002818 putative active site [active] 316407002819 putative metal-binding site [ion binding]; other site 316407002820 Protein of unknown function (DUF535); Region: DUF535; pfam04393 316407002821 macrolide transporter subunit MacA; Provisional; Region: PRK11578 316407002822 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407002823 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407002824 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 316407002825 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316407002826 Walker A/P-loop; other site 316407002827 ATP binding site [chemical binding]; other site 316407002828 Q-loop/lid; other site 316407002829 ABC transporter signature motif; other site 316407002830 Walker B; other site 316407002831 D-loop; other site 316407002832 H-loop/switch region; other site 316407002833 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316407002834 FtsX-like permease family; Region: FtsX; pfam02687 316407002835 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 316407002836 DNA-binding site [nucleotide binding]; DNA binding site 316407002837 RNA-binding motif; other site 316407002838 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 316407002839 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 316407002840 Clp amino terminal domain; Region: Clp_N; pfam02861 316407002841 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 316407002842 Walker A motif; other site 316407002843 ATP binding site [chemical binding]; other site 316407002844 Walker B motif; other site 316407002845 arginine finger; other site 316407002846 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 316407002847 Walker A motif; other site 316407002848 ATP binding site [chemical binding]; other site 316407002849 Walker B motif; other site 316407002850 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316407002851 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 316407002852 rRNA binding site [nucleotide binding]; other site 316407002853 predicted 30S ribosome binding site; other site 316407002854 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 316407002855 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 316407002856 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407002857 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 316407002858 Walker A/P-loop; other site 316407002859 ATP binding site [chemical binding]; other site 316407002860 Q-loop/lid; other site 316407002861 ABC transporter signature motif; other site 316407002862 Walker B; other site 316407002863 D-loop; other site 316407002864 H-loop/switch region; other site 316407002865 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 316407002866 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407002867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407002868 Walker A/P-loop; other site 316407002869 ATP binding site [chemical binding]; other site 316407002870 Q-loop/lid; other site 316407002871 ABC transporter signature motif; other site 316407002872 Walker B; other site 316407002873 D-loop; other site 316407002874 H-loop/switch region; other site 316407002875 thioredoxin reductase; Provisional; Region: PRK10262 316407002876 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407002877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407002878 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 316407002879 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 316407002880 putative DNA binding site [nucleotide binding]; other site 316407002881 putative Zn2+ binding site [ion binding]; other site 316407002882 AsnC family; Region: AsnC_trans_reg; pfam01037 316407002883 DNA translocase FtsK; Provisional; Region: PRK10263 316407002884 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 316407002885 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 316407002886 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 316407002887 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 316407002888 periplasmic chaperone LolA; Region: lolA; TIGR00547 316407002889 recombination factor protein RarA; Reviewed; Region: PRK13342 316407002890 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 316407002891 Walker A motif; other site 316407002892 ATP binding site [chemical binding]; other site 316407002893 Walker B motif; other site 316407002894 arginine finger; other site 316407002895 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 316407002896 seryl-tRNA synthetase; Provisional; Region: PRK05431 316407002897 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 316407002898 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 316407002899 dimer interface [polypeptide binding]; other site 316407002900 active site 316407002901 motif 1; other site 316407002902 motif 2; other site 316407002903 motif 3; other site 316407002904 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 316407002905 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 316407002906 putative [Fe4-S4] binding site [ion binding]; other site 316407002907 putative molybdopterin cofactor binding site [chemical binding]; other site 316407002908 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 316407002909 putative molybdopterin cofactor binding site; other site 316407002910 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 316407002911 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407002912 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 316407002913 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 316407002914 catalytic triad [active] 316407002915 dimer interface [polypeptide binding]; other site 316407002916 conserved cis-peptide bond; other site 316407002917 putative MFS family transporter protein; Provisional; Region: PRK03633 316407002918 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407002919 putative substrate translocation pore; other site 316407002920 Amino acid permease; Region: AA_permease_2; pfam13520 316407002921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407002922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407002923 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 316407002924 putative effector binding pocket; other site 316407002925 putative dimerization interface [polypeptide binding]; other site 316407002926 hypothetical protein; Provisional; Region: PRK09739 316407002927 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 316407002928 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 316407002929 FeS/SAM binding site; other site 316407002930 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 316407002931 Pyruvate formate lyase 1; Region: PFL1; cd01678 316407002932 coenzyme A binding site [chemical binding]; other site 316407002933 active site 316407002934 catalytic residues [active] 316407002935 glycine loop; other site 316407002936 formate transporter; Provisional; Region: PRK10805 316407002937 uncharacterized domain; Region: TIGR00702 316407002938 Predicted membrane protein [Function unknown]; Region: COG2323 316407002939 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 316407002940 homodimer interface [polypeptide binding]; other site 316407002941 substrate-cofactor binding pocket; other site 316407002942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407002943 catalytic residue [active] 316407002944 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 316407002945 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 316407002946 hinge; other site 316407002947 active site 316407002948 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 316407002949 cytidylate kinase; Provisional; Region: cmk; PRK00023 316407002950 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 316407002951 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 316407002952 active site 316407002953 CMP-binding site; other site 316407002954 The sites determining sugar specificity; other site 316407002955 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 316407002956 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 316407002957 RNA binding site [nucleotide binding]; other site 316407002958 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 316407002959 RNA binding site [nucleotide binding]; other site 316407002960 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 316407002961 RNA binding site [nucleotide binding]; other site 316407002962 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 316407002963 RNA binding site [nucleotide binding]; other site 316407002964 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 316407002965 RNA binding site [nucleotide binding]; other site 316407002966 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 316407002967 RNA binding site [nucleotide binding]; other site 316407002968 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 316407002969 dimer interface [polypeptide binding]; other site 316407002970 DNA binding site [nucleotide binding] 316407002971 ComEC family competence protein; Provisional; Region: PRK11539 316407002972 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 316407002973 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 316407002974 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 316407002975 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 316407002976 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407002977 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 316407002978 Walker A/P-loop; other site 316407002979 ATP binding site [chemical binding]; other site 316407002980 Q-loop/lid; other site 316407002981 ABC transporter signature motif; other site 316407002982 Walker B; other site 316407002983 D-loop; other site 316407002984 H-loop/switch region; other site 316407002985 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 316407002986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 316407002987 hypothetical protein; Provisional; Region: PRK11827 316407002988 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 316407002989 Ligand binding site; other site 316407002990 oligomer interface; other site 316407002991 hypothetical protein; Provisional; Region: PRK10593 316407002992 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 316407002993 putative active site [active] 316407002994 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316407002995 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 316407002996 S-adenosylmethionine binding site [chemical binding]; other site 316407002997 condesin subunit F; Provisional; Region: PRK05260 316407002998 condesin subunit E; Provisional; Region: PRK05256 316407002999 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 316407003000 MukB N-terminal; Region: MukB; pfam04310 316407003001 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 316407003002 murein L,D-transpeptidase; Provisional; Region: PRK10594 316407003003 K+ potassium transporter; Region: K_trans; cl15781 316407003004 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316407003005 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407003006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 316407003007 Peptidase M15; Region: Peptidase_M15_3; cl01194 316407003008 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 316407003009 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 316407003010 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 316407003011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407003012 homodimer interface [polypeptide binding]; other site 316407003013 catalytic residue [active] 316407003014 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 316407003015 trimer interface [polypeptide binding]; other site 316407003016 eyelet of channel; other site 316407003017 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 316407003018 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 316407003019 putative dimer interface [polypeptide binding]; other site 316407003020 putative anticodon binding site; other site 316407003021 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 316407003022 homodimer interface [polypeptide binding]; other site 316407003023 motif 1; other site 316407003024 motif 2; other site 316407003025 active site 316407003026 motif 3; other site 316407003027 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 316407003028 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 316407003029 active site 316407003030 aminopeptidase N; Provisional; Region: pepN; PRK14015 316407003031 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 316407003032 active site 316407003033 Zn binding site [ion binding]; other site 316407003034 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 316407003035 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 316407003036 Walker A/P-loop; other site 316407003037 ATP binding site [chemical binding]; other site 316407003038 Q-loop/lid; other site 316407003039 ABC transporter signature motif; other site 316407003040 Walker B; other site 316407003041 D-loop; other site 316407003042 H-loop/switch region; other site 316407003043 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316407003044 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 316407003045 dimer interface [polypeptide binding]; other site 316407003046 conserved gate region; other site 316407003047 putative PBP binding loops; other site 316407003048 ABC-ATPase subunit interface; other site 316407003049 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 316407003050 active site 316407003051 dimer interface [polypeptide binding]; other site 316407003052 non-prolyl cis peptide bond; other site 316407003053 insertion regions; other site 316407003054 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 316407003055 substrate binding pocket [chemical binding]; other site 316407003056 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 316407003057 membrane-bound complex binding site; other site 316407003058 hinge residues; other site 316407003059 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 316407003060 Fimbrial protein; Region: Fimbrial; cl01416 316407003061 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316407003062 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407003063 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407003064 outer membrane usher protein; Provisional; Region: PRK15193 316407003065 PapC N-terminal domain; Region: PapC_N; pfam13954 316407003066 Outer membrane usher protein; Region: Usher; pfam00577 316407003067 PapC C-terminal domain; Region: PapC_C; pfam13953 316407003068 Fimbrial protein; Region: Fimbrial; cl01416 316407003069 Fimbrial protein; Region: Fimbrial; cl01416 316407003070 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407003071 putativi pili assembly chaperone; Provisional; Region: PRK11385 316407003072 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407003073 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407003074 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 316407003075 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 316407003076 quinone interaction residues [chemical binding]; other site 316407003077 active site 316407003078 catalytic residues [active] 316407003079 FMN binding site [chemical binding]; other site 316407003080 substrate binding site [chemical binding]; other site 316407003081 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 316407003082 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 316407003083 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 316407003084 MOSC domain; Region: MOSC; pfam03473 316407003085 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 316407003086 catalytic loop [active] 316407003087 iron binding site [ion binding]; other site 316407003088 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 316407003089 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 316407003090 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 316407003091 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 316407003092 S-adenosylmethionine binding site [chemical binding]; other site 316407003093 ABC transporter ATPase component; Reviewed; Region: PRK11147 316407003094 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407003095 ABC transporter; Region: ABC_tran_2; pfam12848 316407003096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407003097 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 316407003098 Paraquat-inducible protein A; Region: PqiA; pfam04403 316407003099 Paraquat-inducible protein A; Region: PqiA; pfam04403 316407003100 paraquat-inducible protein B; Provisional; Region: PRK10807 316407003101 mce related protein; Region: MCE; pfam02470 316407003102 mce related protein; Region: MCE; pfam02470 316407003103 mce related protein; Region: MCE; pfam02470 316407003104 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 316407003105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 316407003106 ribosome modulation factor; Provisional; Region: PRK14563 316407003107 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 316407003108 active site 1 [active] 316407003109 dimer interface [polypeptide binding]; other site 316407003110 active site 2 [active] 316407003111 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 316407003112 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 316407003113 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 316407003114 outer membrane protein A; Reviewed; Region: PRK10808 316407003115 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 316407003116 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316407003117 ligand binding site [chemical binding]; other site 316407003118 cell division inhibitor SulA; Region: sula; TIGR00623 316407003119 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 316407003120 TfoX C-terminal domain; Region: TfoX_C; pfam04994 316407003121 TIGR01666 family membrane protein; Region: YCCS 316407003122 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 316407003123 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316407003124 Predicted membrane protein [Function unknown]; Region: COG3304 316407003125 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316407003126 Domain of unknown function (DUF307); Region: DUF307; pfam03733 316407003127 DNA helicase IV; Provisional; Region: helD; PRK11054 316407003128 DNA helicase IV / RNA helicase N terminal; Region: Helicase_IV_N; pfam12462 316407003129 Part of AAA domain; Region: AAA_19; pfam13245 316407003130 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 316407003131 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 316407003132 active site 316407003133 dimer interfaces [polypeptide binding]; other site 316407003134 catalytic residues [active] 316407003135 hypothetical protein; Provisional; Region: PRK03641 316407003136 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 316407003137 heat shock protein HspQ; Provisional; Region: PRK14129 316407003138 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 316407003139 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 316407003140 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 316407003141 putative RNA binding site [nucleotide binding]; other site 316407003142 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 316407003143 S-adenosylmethionine binding site [chemical binding]; other site 316407003144 Acylphosphatase; Region: Acylphosphatase; cl00551 316407003145 sulfur transfer protein TusE; Provisional; Region: PRK11508 316407003146 YccA-like proteins; Region: YccA_like; cd10433 316407003147 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 316407003148 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316407003149 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316407003150 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 316407003151 hydrogenase 1 large subunit; Provisional; Region: PRK10170 316407003152 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 316407003153 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 316407003154 putative substrate-binding site; other site 316407003155 nickel binding site [ion binding]; other site 316407003156 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 316407003157 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 316407003158 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 316407003159 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 316407003160 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 316407003161 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 316407003162 catalytic core [active] 316407003163 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 316407003164 Chain length determinant protein; Region: Wzz; pfam02706 316407003165 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407003166 AAA domain; Region: AAA_31; pfam13614 316407003167 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316407003168 active site 316407003169 polysaccharide export protein Wza; Provisional; Region: PRK15078 316407003170 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316407003171 SLBB domain; Region: SLBB; pfam10531 316407003172 SLBB domain; Region: SLBB; pfam10531 316407003173 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 316407003174 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 316407003175 Group 4 capsule polysaccharide formation lipoprotein gfcB; Region: Cap_synth_GfcB; pfam11102 316407003176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407003177 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407003178 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407003179 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407003180 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 316407003181 DNA-binding site [nucleotide binding]; DNA binding site 316407003182 RNA-binding motif; other site 316407003183 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 316407003184 DNA-binding site [nucleotide binding]; DNA binding site 316407003185 RNA-binding motif; other site 316407003186 cold shock gene; Provisional; Region: PRK09891 316407003187 GnsA/GnsB family; Region: GnsAB; pfam08178 316407003188 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 316407003189 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316407003190 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316407003191 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; cl19102 316407003192 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 316407003193 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 316407003194 dimerization interface [polypeptide binding]; other site 316407003195 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 316407003196 dimer interface [polypeptide binding]; other site 316407003197 phosphorylation site [posttranslational modification] 316407003198 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 316407003199 ATP binding site [chemical binding]; other site 316407003200 Mg2+ binding site [ion binding]; other site 316407003201 G-X-G motif; other site 316407003202 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 316407003203 active site 316407003204 phosphorylation site [posttranslational modification] 316407003205 intermolecular recognition site; other site 316407003206 dimerization interface [polypeptide binding]; other site 316407003207 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 316407003208 putative binding surface; other site 316407003209 active site 316407003210 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 316407003211 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 316407003212 putative ligand binding site [chemical binding]; other site 316407003213 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 316407003214 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 316407003215 active site 316407003216 phosphorylation site [posttranslational modification] 316407003217 intermolecular recognition site; other site 316407003218 dimerization interface [polypeptide binding]; other site 316407003219 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 316407003220 DNA binding site [nucleotide binding] 316407003221 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 316407003222 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 316407003223 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 316407003224 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 316407003225 molybdopterin cofactor binding site [chemical binding]; other site 316407003226 substrate binding site [chemical binding]; other site 316407003227 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 316407003228 molybdopterin cofactor binding site; other site 316407003229 chaperone protein TorD; Validated; Region: torD; PRK04976 316407003230 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 316407003231 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 316407003232 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 316407003233 HSP70 interaction site [polypeptide binding]; other site 316407003234 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 316407003235 substrate binding site [polypeptide binding]; other site 316407003236 dimer interface [polypeptide binding]; other site 316407003237 hypothetical protein; Provisional; Region: PRK09784 316407003238 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 316407003239 catalytic core [active] 316407003240 hypothetical protein; Provisional; Region: PRK10174 316407003241 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 316407003242 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 316407003243 General stress protein [General function prediction only]; Region: GsiB; COG3729 316407003244 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 316407003245 uracil-xanthine permease; Region: ncs2; TIGR00801 316407003246 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 316407003247 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 316407003248 putative FMN binding site [chemical binding]; other site 316407003249 pyrimidine utilization protein D; Region: RutD; TIGR03611 316407003250 Putative lysophospholipase; Region: Hydrolase_4; cl19140 316407003251 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 316407003252 homotrimer interaction site [polypeptide binding]; other site 316407003253 putative active site [active] 316407003254 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 316407003255 catalytic triad [active] 316407003256 conserved cis-peptide bond; other site 316407003257 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 316407003258 active site 316407003259 dimer interface [polypeptide binding]; other site 316407003260 non-prolyl cis peptide bond; other site 316407003261 insertion regions; other site 316407003262 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316407003263 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 316407003264 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407003265 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 316407003266 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 316407003267 Predicted transcriptional regulator [Transcription]; Region: COG3905 316407003268 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 316407003269 Proline dehydrogenase; Region: Pro_dh; pfam01619 316407003270 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 316407003271 Glutamate binding site [chemical binding]; other site 316407003272 NAD binding site [chemical binding]; other site 316407003273 catalytic residues [active] 316407003274 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 316407003275 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 316407003276 Na binding site [ion binding]; other site 316407003277 ECK1007:JW5141+JW1002:b4490; predicted membrane protein 316407003278 'ECK1007:JW5141:b1016; hypothetical protein, N-ter fragment' 316407003279 'ECK1007:JW1002:b1017; hypothetical protein, C-ter fragment' 316407003280 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 316407003281 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 316407003282 Imelysin; Region: Peptidase_M75; pfam09375 316407003283 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 316407003284 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 316407003285 hypothetical protein; Provisional; Region: PRK10536 316407003286 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 316407003287 N-glycosyltransferase; Provisional; Region: PRK11204 316407003288 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 316407003289 DXD motif; other site 316407003290 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 316407003291 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 316407003292 putative active site [active] 316407003293 putative metal binding site [ion binding]; other site 316407003294 Hypothetical glycosyl hydrolase family 13; Region: GHL13; pfam14883 316407003295 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 316407003296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407003297 metal binding site [ion binding]; metal-binding site 316407003298 active site 316407003299 I-site; other site 316407003300 putative transposase OrfB; Reviewed; Region: PHA02517 316407003301 HTH-like domain; Region: HTH_21; pfam13276 316407003302 Integrase core domain; Region: rve; pfam00665 316407003303 Integrase core domain; Region: rve_2; pfam13333 316407003304 Transposase; Region: HTH_Tnp_1; cl17663 316407003305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407003306 ECK1016:JW5145:b1028; hypothetical protein 316407003307 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 316407003308 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 316407003309 putative ligand binding site [chemical binding]; other site 316407003310 NAD binding site [chemical binding]; other site 316407003311 dimerization interface [polypeptide binding]; other site 316407003312 catalytic site [active] 316407003313 putative hydrolase; Validated; Region: PRK09248 316407003314 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 316407003315 active site 316407003316 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 316407003317 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 316407003318 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 316407003319 curli assembly protein CsgF; Provisional; Region: PRK10050 316407003320 curli assembly protein CsgE; Provisional; Region: PRK10386 316407003321 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 316407003322 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 316407003323 DNA binding residues [nucleotide binding] 316407003324 dimerization interface [polypeptide binding]; other site 316407003325 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 316407003326 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316407003327 Curlin associated repeat; Region: Curlin_rpt; pfam07012 316407003328 major curlin subunit; Provisional; Region: csgA; PRK10051 316407003329 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; pfam10610 316407003330 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407003331 HTH-like domain; Region: HTH_21; pfam13276 316407003332 Integrase core domain; Region: rve; pfam00665 316407003333 Integrase core domain; Region: rve_3; pfam13683 316407003334 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407003335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407003336 Fimbrial protein; Region: Fimbrial; cl01416 316407003337 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 316407003338 putative ADP-ribose binding site [chemical binding]; other site 316407003339 putative active site [active] 316407003340 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 316407003341 PLD-like domain; Region: PLDc_2; pfam13091 316407003342 putative active site [active] 316407003343 catalytic site [active] 316407003344 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 316407003345 PLD-like domain; Region: PLDc_2; pfam13091 316407003346 putative active site [active] 316407003347 catalytic site [active] 316407003348 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 316407003349 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 316407003350 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 316407003351 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 316407003352 Ligand binding site; other site 316407003353 DXD motif; other site 316407003354 lipoprotein; Provisional; Region: PRK10175 316407003355 secY/secA suppressor protein; Provisional; Region: PRK11467 316407003356 drug efflux system protein MdtG; Provisional; Region: PRK09874 316407003357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407003358 putative substrate translocation pore; other site 316407003359 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316407003360 putative acyl-acceptor binding pocket; other site 316407003361 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 316407003362 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 316407003363 active site residue [active] 316407003364 hypothetical protein; Provisional; Region: PRK03757 316407003365 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316407003366 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 316407003367 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316407003368 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 316407003369 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 316407003370 DNA damage-inducible protein I; Provisional; Region: PRK10597 316407003371 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 316407003372 active site 316407003373 substrate binding pocket [chemical binding]; other site 316407003374 dimer interface [polypeptide binding]; other site 316407003375 lipoprotein; Provisional; Region: PRK10598 316407003376 glutaredoxin 2; Provisional; Region: PRK10387 316407003377 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 316407003378 C-terminal domain interface [polypeptide binding]; other site 316407003379 GSH binding site (G-site) [chemical binding]; other site 316407003380 catalytic residues [active] 316407003381 putative dimer interface [polypeptide binding]; other site 316407003382 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 316407003383 N-terminal domain interface [polypeptide binding]; other site 316407003384 multidrug resistance protein MdtH; Provisional; Region: PRK11646 316407003385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407003386 putative substrate translocation pore; other site 316407003387 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 316407003388 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316407003389 hypothetical protein; Provisional; Region: PRK11239 316407003390 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316407003391 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407003392 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407003393 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 316407003394 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 316407003395 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 316407003396 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 316407003397 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 316407003398 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 316407003399 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 316407003400 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 316407003401 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 316407003402 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316407003403 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316407003404 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 316407003405 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 316407003406 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 316407003407 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 316407003408 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316407003409 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 316407003410 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316407003411 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 316407003412 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316407003413 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 316407003414 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 316407003415 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316407003416 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316407003417 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 316407003418 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 316407003419 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 316407003420 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 316407003421 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 316407003422 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 316407003423 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 316407003424 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 316407003425 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 316407003426 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316407003427 ribonuclease E; Reviewed; Region: rne; PRK10811 316407003428 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 316407003429 homodimer interface [polypeptide binding]; other site 316407003430 oligonucleotide binding site [chemical binding]; other site 316407003431 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 316407003432 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 316407003433 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 316407003434 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 316407003435 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 316407003436 RNA binding surface [nucleotide binding]; other site 316407003437 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316407003438 active site 316407003439 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 316407003440 active site 316407003441 dimer interface [polypeptide binding]; other site 316407003442 hypothetical protein; Provisional; Region: PRK11193 316407003443 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 316407003444 putative phosphate acyltransferase; Provisional; Region: PRK05331 316407003445 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 316407003446 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 316407003447 dimer interface [polypeptide binding]; other site 316407003448 active site 316407003449 CoA binding pocket [chemical binding]; other site 316407003450 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 316407003451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 316407003452 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 316407003453 NAD(P) binding site [chemical binding]; other site 316407003454 homotetramer interface [polypeptide binding]; other site 316407003455 homodimer interface [polypeptide binding]; other site 316407003456 active site 316407003457 acyl carrier protein; Provisional; Region: acpP; PRK00982 316407003458 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 316407003459 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 316407003460 dimer interface [polypeptide binding]; other site 316407003461 active site 316407003462 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 316407003463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407003464 catalytic residue [active] 316407003465 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 316407003466 dimerization interface [polypeptide binding]; other site 316407003467 thymidylate kinase; Validated; Region: tmk; PRK00698 316407003468 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 316407003469 TMP-binding site; other site 316407003470 ATP-binding site [chemical binding]; other site 316407003471 DNA polymerase III subunit delta'; Validated; Region: PRK07993 316407003472 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 316407003473 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316407003474 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316407003475 active site 316407003476 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 316407003477 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407003478 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 316407003479 active site turn [active] 316407003480 phosphorylation site [posttranslational modification] 316407003481 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 316407003482 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 316407003483 N-terminal plug; other site 316407003484 ligand-binding site [chemical binding]; other site 316407003485 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 316407003486 nucleotide binding site/active site [active] 316407003487 HIT family signature motif; other site 316407003488 catalytic residue [active] 316407003489 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 316407003490 putative dimer interface [polypeptide binding]; other site 316407003491 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 316407003492 thiamine kinase; Region: ycfN_thiK; TIGR02721 316407003493 Phosphotransferase enzyme family; Region: APH; pfam01636 316407003494 active site 316407003495 substrate binding site [chemical binding]; other site 316407003496 ATP binding site [chemical binding]; other site 316407003497 beta-hexosaminidase; Provisional; Region: PRK05337 316407003498 hypothetical protein; Provisional; Region: PRK04940 316407003499 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 316407003500 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407003501 hypothetical protein; Provisional; Region: PRK11280 316407003502 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316407003503 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407003504 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407003505 L,D-transpeptidase; Provisional; Region: PRK10260 316407003506 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407003507 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407003508 transcription-repair coupling factor; Provisional; Region: PRK10689 316407003509 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 316407003510 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 316407003511 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 316407003512 ATP binding site [chemical binding]; other site 316407003513 putative Mg++ binding site [ion binding]; other site 316407003514 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 316407003515 nucleotide binding region [chemical binding]; other site 316407003516 ATP-binding site [chemical binding]; other site 316407003517 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 316407003518 Predicted membrane protein [Function unknown]; Region: COG4763 316407003519 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 316407003520 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316407003521 FtsX-like permease family; Region: FtsX; pfam02687 316407003522 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 316407003523 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 316407003524 Walker A/P-loop; other site 316407003525 ATP binding site [chemical binding]; other site 316407003526 Q-loop/lid; other site 316407003527 ABC transporter signature motif; other site 316407003528 Walker B; other site 316407003529 D-loop; other site 316407003530 H-loop/switch region; other site 316407003531 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 316407003532 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 316407003533 FtsX-like permease family; Region: FtsX; pfam02687 316407003534 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407003535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407003536 nucleotide binding site [chemical binding]; other site 316407003537 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 316407003538 NAD+ binding site [chemical binding]; other site 316407003539 substrate binding site [chemical binding]; other site 316407003540 Zn binding site [ion binding]; other site 316407003541 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; cl01535 316407003542 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 316407003543 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 316407003544 spermidine/putrescine ABC transporter membrane protein; Reviewed; Region: potC; PRK09500 316407003545 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 316407003546 dimer interface [polypeptide binding]; other site 316407003547 conserved gate region; other site 316407003548 putative PBP binding loops; other site 316407003549 ABC-ATPase subunit interface; other site 316407003550 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316407003551 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 316407003552 dimer interface [polypeptide binding]; other site 316407003553 conserved gate region; other site 316407003554 putative PBP binding loops; other site 316407003555 ABC-ATPase subunit interface; other site 316407003556 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 316407003557 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 316407003558 Walker A/P-loop; other site 316407003559 ATP binding site [chemical binding]; other site 316407003560 Q-loop/lid; other site 316407003561 ABC transporter signature motif; other site 316407003562 Walker B; other site 316407003563 D-loop; other site 316407003564 H-loop/switch region; other site 316407003565 TOBE domain; Region: TOBE_2; pfam08402 316407003566 peptidase T-like protein; Region: PepT-like; TIGR01883 316407003567 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 316407003568 metal binding site [ion binding]; metal-binding site 316407003569 dimer interface [polypeptide binding]; other site 316407003570 Uncharacterized conserved protein [Function unknown]; Region: COG2850 316407003571 sensor protein PhoQ; Provisional; Region: PRK10815 316407003572 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 316407003573 HAMP domain; Region: HAMP; pfam00672 316407003574 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 316407003575 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 316407003576 ATP binding site [chemical binding]; other site 316407003577 Mg2+ binding site [ion binding]; other site 316407003578 G-X-G motif; other site 316407003579 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 316407003580 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 316407003581 active site 316407003582 phosphorylation site [posttranslational modification] 316407003583 intermolecular recognition site; other site 316407003584 dimerization interface [polypeptide binding]; other site 316407003585 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 316407003586 DNA binding site [nucleotide binding] 316407003587 adenylosuccinate lyase; Provisional; Region: PRK09285 316407003588 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 316407003589 tetramer interface [polypeptide binding]; other site 316407003590 active site 316407003591 putative lysogenization regulator; Reviewed; Region: PRK00218 316407003592 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 316407003593 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 316407003594 Ligand Binding Site [chemical binding]; other site 316407003595 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 316407003596 nudix motif; other site 316407003597 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 316407003598 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 316407003599 probable active site [active] 316407003600 isocitrate dehydrogenase; Reviewed; Region: PRK07006 316407003601 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 316407003602 S-adenosylmethionine binding site [chemical binding]; other site 316407003603 phage exclusion protein Lit; Provisional; Region: PRK09672 316407003604 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 316407003605 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316407003606 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 316407003607 dimer interface [polypeptide binding]; other site 316407003608 active site 316407003609 Int/Topo IB signature motif; other site 316407003610 Excisionase-like protein; Region: Exc; pfam07825 316407003611 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 316407003612 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 316407003613 Catalytic site [active] 316407003614 Helix-turn-helix domain; Region: HTH_36; pfam13730 316407003615 Phage Terminase; Region: Terminase_1; cl19862 316407003616 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 316407003617 Phage-related protein [Function unknown]; Region: COG4695 316407003618 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 316407003619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 316407003620 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407003621 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407003622 ECK1143:JW5172:b1157; e14 prophage region; predicted side tail fiber protein fragment 316407003623 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 316407003624 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316407003625 catalytic residues [active] 316407003626 catalytic nucleophile [active] 316407003627 Presynaptic Site I dimer interface [polypeptide binding]; other site 316407003628 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316407003629 Synaptic Flat tetramer interface [polypeptide binding]; other site 316407003630 Synaptic Site I dimer interface [polypeptide binding]; other site 316407003631 DNA binding site [nucleotide binding] 316407003632 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 316407003633 DNA-binding interface [nucleotide binding]; DNA binding site 316407003634 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 316407003635 active site 316407003636 ECK1146:JW5173:b4519; conserved hypothetical protein 316407003637 anti-adapter protein IraM; Provisional; Region: PRK09919 316407003638 Phage envelope protein [General function prediction only]; Region: COG5562 316407003639 transcriptional regulator MirA; Provisional; Region: PRK15043 316407003640 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 316407003641 DNA binding residues [nucleotide binding] 316407003642 Sensors of blue-light using FAD; Region: BLUF; smart01034 316407003643 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 316407003644 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 316407003645 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 316407003646 phage resistance protein; Provisional; Region: PRK10551 316407003647 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316407003648 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 316407003649 ECK1157:JW5901+JW5176:b4491; hypothetical protein 316407003650 'ECK1157:JW5901:b1169; hypothetical protein, N-ter fragment' 316407003651 'ECK1157:JW5176:b1170; hypothetical protein, C-ter fragment' 316407003652 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 316407003653 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407003654 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407003655 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 316407003656 cell division inhibitor MinD; Provisional; Region: PRK10818 316407003657 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 316407003658 P-loop; other site 316407003659 ADP binding residues [chemical binding]; other site 316407003660 Switch I; other site 316407003661 Switch II; other site 316407003662 septum formation inhibitor; Reviewed; Region: minC; PRK03511 316407003663 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 316407003664 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 316407003665 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 316407003666 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 316407003667 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 316407003668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 316407003669 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 316407003670 hypothetical protein; Provisional; Region: PRK10691 316407003671 hypothetical protein; Provisional; Region: PRK05170 316407003672 Haemolysin E (HlyE); Region: HlyE; pfam06109 316407003673 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 316407003674 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 316407003675 Catalytic site [active] 316407003676 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 316407003677 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 316407003678 active site 316407003679 DNA binding site [nucleotide binding] 316407003680 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 316407003681 disulfide bond formation protein B; Provisional; Region: PRK01749 316407003682 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 316407003683 fatty acid metabolism regulator; Provisional; Region: PRK04984 316407003684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407003685 DNA-binding site [nucleotide binding]; DNA binding site 316407003686 FadR C-terminal domain; Region: FadR_C; pfam07840 316407003687 SpoVR family protein; Provisional; Region: PRK11767 316407003688 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 316407003689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407003690 alanine racemase; Reviewed; Region: dadX; PRK03646 316407003691 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 316407003692 active site 316407003693 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407003694 substrate binding site [chemical binding]; other site 316407003695 catalytic residues [active] 316407003696 dimer interface [polypeptide binding]; other site 316407003697 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 316407003698 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 316407003699 TrkA-C domain; Region: TrkA_C; pfam02080 316407003700 Transporter associated domain; Region: CorC_HlyC; smart01091 316407003701 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 316407003702 dimer interface [polypeptide binding]; other site 316407003703 catalytic triad [active] 316407003704 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 316407003705 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407003706 catalytic residue [active] 316407003707 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 316407003708 Flagellar regulator YcgR; Region: YcgR; pfam07317 316407003709 PilZ domain; Region: PilZ; pfam07238 316407003710 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 316407003711 trehalase; Provisional; Region: treA; PRK13271 316407003712 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 316407003713 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 316407003714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 316407003715 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 316407003716 dimerization domain swap beta strand [polypeptide binding]; other site 316407003717 regulatory protein interface [polypeptide binding]; other site 316407003718 active site 316407003719 regulatory phosphorylation site [posttranslational modification]; other site 316407003720 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 316407003721 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407003722 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 316407003723 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 316407003724 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 316407003725 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 316407003726 putative active site [active] 316407003727 heme pocket [chemical binding]; other site 316407003728 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 316407003729 Walker A motif; other site 316407003730 ATP binding site [chemical binding]; other site 316407003731 Walker B motif; other site 316407003732 arginine finger; other site 316407003733 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407003734 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 316407003735 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407003736 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316407003737 GTP-binding protein YchF; Reviewed; Region: PRK09601 316407003738 YchF GTPase; Region: YchF; cd01900 316407003739 G1 box; other site 316407003740 GTP/Mg2+ binding site [chemical binding]; other site 316407003741 Switch I region; other site 316407003742 G2 box; other site 316407003743 Switch II region; other site 316407003744 G3 box; other site 316407003745 G4 box; other site 316407003746 G5 box; other site 316407003747 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 316407003748 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 316407003749 putative active site [active] 316407003750 catalytic residue [active] 316407003751 hypothetical protein; Provisional; Region: PRK10692 316407003752 putative transporter; Provisional; Region: PRK11660 316407003753 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 316407003754 Sulfate transporter family; Region: Sulfate_transp; pfam00916 316407003755 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 316407003756 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 316407003757 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 316407003758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407003759 active site 316407003760 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 316407003761 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 316407003762 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 316407003763 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 316407003764 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 316407003765 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 316407003766 tRNA; other site 316407003767 putative tRNA binding site [nucleotide binding]; other site 316407003768 putative NADP binding site [chemical binding]; other site 316407003769 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 316407003770 peptide chain release factor 1; Validated; Region: prfA; PRK00591 316407003771 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316407003772 RF-1 domain; Region: RF-1; pfam00472 316407003773 HemK family putative methylases; Region: hemK_fam; TIGR00536 316407003774 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; cl17726 316407003775 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 316407003776 S-adenosylmethionine binding site [chemical binding]; other site 316407003777 hypothetical protein; Provisional; Region: PRK10278 316407003778 hypothetical protein; Provisional; Region: PRK10941 316407003779 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 316407003780 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 316407003781 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316407003782 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316407003783 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316407003784 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 316407003785 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316407003786 cation transport regulator; Reviewed; Region: chaB; PRK09582 316407003787 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 316407003788 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 316407003789 putative active site pocket [active] 316407003790 dimerization interface [polypeptide binding]; other site 316407003791 putative catalytic residue [active] 316407003792 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 316407003793 putative invasin; Provisional; Region: PRK10177 316407003794 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316407003795 transcriptional regulator NarL; Provisional; Region: PRK10651 316407003796 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 316407003797 active site 316407003798 phosphorylation site [posttranslational modification] 316407003799 intermolecular recognition site; other site 316407003800 dimerization interface [polypeptide binding]; other site 316407003801 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 316407003802 DNA binding residues [nucleotide binding] 316407003803 dimerization interface [polypeptide binding]; other site 316407003804 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 316407003805 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 316407003806 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 316407003807 dimerization interface [polypeptide binding]; other site 316407003808 Histidine kinase; Region: HisKA_3; pfam07730 316407003809 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 316407003810 ATP binding site [chemical binding]; other site 316407003811 Mg2+ binding site [ion binding]; other site 316407003812 G-X-G motif; other site 316407003813 lysophospholipid transporter LplT; Provisional; Region: PRK11195; cl19150 316407003814 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 316407003815 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 316407003816 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 316407003817 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 316407003818 [4Fe-4S] binding site [ion binding]; other site 316407003819 molybdopterin cofactor binding site [chemical binding]; other site 316407003820 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 316407003821 molybdopterin cofactor binding site; other site 316407003822 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 316407003823 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407003824 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 316407003825 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 316407003826 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 316407003827 putative protamine-like protein; Provisional; Region: PRK14757 316407003828 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 316407003829 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 316407003830 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 316407003831 putative active site [active] 316407003832 putative substrate binding site [chemical binding]; other site 316407003833 putative cosubstrate binding site; other site 316407003834 catalytic site [active] 316407003835 hypothetical protein; Provisional; Region: PRK01617 316407003836 SEC-C motif; Region: SEC-C; cl19389 316407003837 SEC-C motif; Region: SEC-C; cl19389 316407003838 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 316407003839 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 316407003840 active site 316407003841 nucleophile elbow; other site 316407003842 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 316407003843 active site 316407003844 response regulator of RpoS; Provisional; Region: PRK10693 316407003845 phosphorylation site [posttranslational modification] 316407003846 intermolecular recognition site; other site 316407003847 dimerization interface [polypeptide binding]; other site 316407003848 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316407003849 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 316407003850 active site 316407003851 tetramer interface; other site 316407003852 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 316407003853 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 316407003854 thymidine kinase; Provisional; Region: PRK04296 316407003855 ECK1234:JW5883+JW1227:b4573; hypothetical protein 316407003856 'ECK1234:JW1227:b1239; hypothetical protein, C-ter fragment' 316407003857 'ECK1234:JW5883:b1240; hypothetical protein, N-ter fragment' 316407003858 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 316407003859 Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins; Region: ALDH_F20_ACDH_EutE-like; cd07081 316407003860 putative catalytic cysteine [active] 316407003861 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 316407003862 putative active site [active] 316407003863 metal binding site [ion binding]; metal-binding site 316407003864 hypothetical protein; Provisional; Region: PRK11111 316407003865 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407003866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407003867 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407003868 HTH-like domain; Region: HTH_21; pfam13276 316407003869 Integrase core domain; Region: rve; pfam00665 316407003870 Integrase core domain; Region: rve_3; pfam13683 316407003871 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316407003872 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316407003873 peptide binding site [polypeptide binding]; other site 316407003874 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 316407003875 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 316407003876 dimer interface [polypeptide binding]; other site 316407003877 conserved gate region; other site 316407003878 putative PBP binding loops; other site 316407003879 ABC-ATPase subunit interface; other site 316407003880 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 316407003881 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316407003882 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 316407003883 dimer interface [polypeptide binding]; other site 316407003884 conserved gate region; other site 316407003885 putative PBP binding loops; other site 316407003886 ABC-ATPase subunit interface; other site 316407003887 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 316407003888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407003889 Walker A/P-loop; other site 316407003890 ATP binding site [chemical binding]; other site 316407003891 Q-loop/lid; other site 316407003892 ABC transporter signature motif; other site 316407003893 Walker B; other site 316407003894 D-loop; other site 316407003895 H-loop/switch region; other site 316407003896 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407003897 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 316407003898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407003899 Walker A/P-loop; other site 316407003900 ATP binding site [chemical binding]; other site 316407003901 Q-loop/lid; other site 316407003902 ABC transporter signature motif; other site 316407003903 Walker B; other site 316407003904 D-loop; other site 316407003905 H-loop/switch region; other site 316407003906 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407003907 dsDNA-mimic protein; Reviewed; Region: PRK05094 316407003908 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 316407003909 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 316407003910 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 316407003911 putative active site [active] 316407003912 catalytic site [active] 316407003913 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 316407003914 putative active site [active] 316407003915 catalytic site [active] 316407003916 voltage-gated potassium channel; Provisional; Region: PRK10537 316407003917 Ion channel; Region: Ion_trans_2; pfam07885 316407003918 TrkA-N domain; Region: TrkA_N; pfam02254 316407003919 YciI-like protein; Reviewed; Region: PRK11370 316407003920 transport protein TonB; Provisional; Region: PRK10819 316407003921 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 316407003922 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 316407003923 intracellular septation protein A; Reviewed; Region: PRK00259 316407003924 hypothetical protein; Provisional; Region: PRK02868 316407003925 outer membrane protein W; Provisional; Region: PRK10959 316407003926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 316407003927 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 316407003928 dimerization interface [polypeptide binding]; other site 316407003929 metal binding site [ion binding]; metal-binding site 316407003930 General stress protein [General function prediction only]; Region: GsiB; COG3729 316407003931 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 316407003932 substrate binding site [chemical binding]; other site 316407003933 active site 316407003934 catalytic residues [active] 316407003935 heterodimer interface [polypeptide binding]; other site 316407003936 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 316407003937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407003938 catalytic residue [active] 316407003939 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 316407003940 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 316407003941 active site 316407003942 ribulose/triose binding site [chemical binding]; other site 316407003943 phosphate binding site [ion binding]; other site 316407003944 substrate (anthranilate) binding pocket [chemical binding]; other site 316407003945 product (indole) binding pocket [chemical binding]; other site 316407003946 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 316407003947 active site 316407003948 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 316407003949 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316407003950 glutamine binding [chemical binding]; other site 316407003951 catalytic triad [active] 316407003952 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316407003953 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316407003954 anthranilate synthase component I; Provisional; Region: PRK13564 316407003955 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316407003956 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 316407003957 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 316407003958 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 316407003959 active site 316407003960 hypothetical protein; Provisional; Region: PRK11630 316407003961 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 316407003962 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 316407003963 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 316407003964 RNA binding surface [nucleotide binding]; other site 316407003965 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 316407003966 probable active site [active] 316407003967 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 316407003968 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 316407003969 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 316407003970 homodimer interface [polypeptide binding]; other site 316407003971 Walker A motif; other site 316407003972 ATP binding site [chemical binding]; other site 316407003973 hydroxycobalamin binding site [chemical binding]; other site 316407003974 Walker B motif; other site 316407003975 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 316407003976 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316407003977 NADP binding site [chemical binding]; other site 316407003978 homodimer interface [polypeptide binding]; other site 316407003979 active site 316407003980 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 316407003981 putative inner membrane peptidase; Provisional; Region: PRK11778 316407003982 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 316407003983 tandem repeat interface [polypeptide binding]; other site 316407003984 oligomer interface [polypeptide binding]; other site 316407003985 active site residues [active] 316407003986 hypothetical protein; Provisional; Region: PRK11037 316407003987 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 316407003988 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 316407003989 active site 316407003990 interdomain interaction site; other site 316407003991 putative metal-binding site [ion binding]; other site 316407003992 nucleotide binding site [chemical binding]; other site 316407003993 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 316407003994 domain I; other site 316407003995 DNA binding groove [nucleotide binding] 316407003996 phosphate binding site [ion binding]; other site 316407003997 domain II; other site 316407003998 domain III; other site 316407003999 nucleotide binding site [chemical binding]; other site 316407004000 catalytic site [active] 316407004001 domain IV; other site 316407004002 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316407004003 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316407004004 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 316407004005 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 316407004006 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 316407004007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407004008 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 316407004009 substrate binding site [chemical binding]; other site 316407004010 putative dimerization interface [polypeptide binding]; other site 316407004011 ECK1270:JW5198+JW5199:b4574; hypothetical protein 316407004012 'ECK1270:JW5198:b4522; hypothetical protein, N-ter fragment' 316407004013 'ECK1270:JW5199:b4523; hypothetical protein, C-ter fragment' 316407004014 aconitate hydratase; Validated; Region: PRK09277 316407004015 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 316407004016 substrate binding site [chemical binding]; other site 316407004017 ligand binding site [chemical binding]; other site 316407004018 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 316407004019 substrate binding site [chemical binding]; other site 316407004020 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 316407004021 dimerization interface [polypeptide binding]; other site 316407004022 active site 316407004023 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316407004024 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 316407004025 active site 316407004026 Predicted membrane protein [Function unknown]; Region: COG3771 316407004027 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 316407004028 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 316407004029 TPR motif; other site 316407004030 binding surface 316407004031 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 316407004032 binding surface 316407004033 TPR motif; other site 316407004034 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 316407004035 active site 316407004036 dimer interface [polypeptide binding]; other site 316407004037 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 316407004038 putative rRNA binding site [nucleotide binding]; other site 316407004039 lipoprotein; Provisional; Region: PRK10540 316407004040 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316407004041 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316407004042 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407004043 RNase II stability modulator; Provisional; Region: PRK10060 316407004044 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 316407004045 putative active site [active] 316407004046 heme pocket [chemical binding]; other site 316407004047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004048 metal binding site [ion binding]; metal-binding site 316407004049 active site 316407004050 I-site; other site 316407004051 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 316407004052 exoribonuclease II; Provisional; Region: PRK05054 316407004053 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 316407004054 RNB domain; Region: RNB; pfam00773 316407004055 S1 RNA binding domain; Region: S1; pfam00575 316407004056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 316407004057 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316407004058 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 316407004059 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 316407004060 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 316407004061 NAD binding site [chemical binding]; other site 316407004062 homotetramer interface [polypeptide binding]; other site 316407004063 homodimer interface [polypeptide binding]; other site 316407004064 substrate binding site [chemical binding]; other site 316407004065 active site 316407004066 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 316407004067 putative active site [active] 316407004068 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 316407004069 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407004070 Walker A/P-loop; other site 316407004071 ATP binding site [chemical binding]; other site 316407004072 Q-loop/lid; other site 316407004073 ABC transporter signature motif; other site 316407004074 Walker B; other site 316407004075 D-loop; other site 316407004076 H-loop/switch region; other site 316407004077 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 316407004078 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407004079 Walker A/P-loop; other site 316407004080 ATP binding site [chemical binding]; other site 316407004081 Q-loop/lid; other site 316407004082 ABC transporter signature motif; other site 316407004083 Walker B; other site 316407004084 D-loop; other site 316407004085 H-loop/switch region; other site 316407004086 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407004087 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 316407004088 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316407004089 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 316407004090 dimer interface [polypeptide binding]; other site 316407004091 conserved gate region; other site 316407004092 putative PBP binding loops; other site 316407004093 ABC-ATPase subunit interface; other site 316407004094 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 316407004095 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 316407004096 dimer interface [polypeptide binding]; other site 316407004097 conserved gate region; other site 316407004098 putative PBP binding loops; other site 316407004099 ABC-ATPase subunit interface; other site 316407004100 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 316407004101 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 316407004102 peptide binding site [polypeptide binding]; other site 316407004103 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 316407004104 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407004105 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 316407004106 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 316407004107 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316407004108 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 316407004109 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 316407004110 catalytic triad [active] 316407004111 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 316407004112 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 316407004113 non-specific DNA binding site [nucleotide binding]; other site 316407004114 salt bridge; other site 316407004115 sequence-specific DNA binding site [nucleotide binding]; other site 316407004116 Cupin domain; Region: Cupin_2; pfam07883 316407004117 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 316407004118 NAD(P) binding site [chemical binding]; other site 316407004119 catalytic residues [active] 316407004120 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 316407004121 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 316407004122 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 316407004123 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407004124 inhibitor-cofactor binding pocket; inhibition site 316407004125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407004126 catalytic residue [active] 316407004127 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 316407004128 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 316407004129 Walker A motif; other site 316407004130 ATP binding site [chemical binding]; other site 316407004131 Walker B motif; other site 316407004132 arginine finger; other site 316407004133 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 316407004134 phage shock protein PspA; Provisional; Region: PRK10698 316407004135 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 316407004136 phage shock protein B; Provisional; Region: pspB; PRK09458 316407004137 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 316407004138 phage shock protein C; Region: phageshock_pspC; TIGR02978 316407004139 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 316407004140 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 316407004141 active site residue [active] 316407004142 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 316407004143 sucrose phosphorylase; Provisional; Region: PRK13840 316407004144 active site 316407004145 homodimer interface [polypeptide binding]; other site 316407004146 catalytic site [active] 316407004147 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316407004148 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 316407004149 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 316407004150 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 316407004151 dimer interface [polypeptide binding]; other site 316407004152 conserved gate region; other site 316407004153 putative PBP binding loops; other site 316407004154 ABC-ATPase subunit interface; other site 316407004155 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316407004156 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 316407004157 dimer interface [polypeptide binding]; other site 316407004158 conserved gate region; other site 316407004159 putative PBP binding loops; other site 316407004160 ABC-ATPase subunit interface; other site 316407004161 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407004162 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 316407004163 putative NAD(P) binding site [chemical binding]; other site 316407004164 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 316407004165 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 316407004166 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316407004167 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407004168 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407004169 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 316407004170 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 316407004171 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 316407004172 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 316407004173 beta-phosphoglucomutase; Region: bPGM; TIGR01990 316407004174 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 316407004175 motif II; other site 316407004176 potential frameshift: common BLAST hit: gi|254161398|ref|YP_003044506.1| putative sugar transport protein 316407004177 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 316407004178 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316407004179 Walker A/P-loop; other site 316407004180 ATP binding site [chemical binding]; other site 316407004181 Q-loop/lid; other site 316407004182 ABC transporter signature motif; other site 316407004183 Walker B; other site 316407004184 D-loop; other site 316407004185 H-loop/switch region; other site 316407004186 TOBE domain; Region: TOBE_2; pfam08402 316407004187 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 316407004188 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 316407004189 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316407004190 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407004191 DNA binding site [nucleotide binding] 316407004192 domain linker motif; other site 316407004193 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 316407004194 putative dimerization interface [polypeptide binding]; other site 316407004195 putative ligand binding site [chemical binding]; other site 316407004196 Predicted ATPase [General function prediction only]; Region: COG3106 316407004197 hypothetical protein; Provisional; Region: PRK05415 316407004198 Predicted membrane protein [Function unknown]; Region: COG3768 316407004199 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 316407004200 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 316407004201 putative aromatic amino acid binding site; other site 316407004202 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 316407004203 putative active site [active] 316407004204 heme pocket [chemical binding]; other site 316407004205 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 316407004206 Walker A motif; other site 316407004207 ATP binding site [chemical binding]; other site 316407004208 Walker B motif; other site 316407004209 arginine finger; other site 316407004210 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 316407004211 dimer interface [polypeptide binding]; other site 316407004212 catalytic triad [active] 316407004213 peroxidatic and resolving cysteines [active] 316407004214 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 316407004215 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 316407004216 active site 316407004217 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 316407004218 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 316407004219 putative active site [active] 316407004220 Zn binding site [ion binding]; other site 316407004221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316407004222 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 316407004223 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 316407004224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407004225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407004226 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 316407004227 putative effector binding pocket; other site 316407004228 putative dimerization interface [polypeptide binding]; other site 316407004229 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316407004230 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316407004231 peptide binding site [polypeptide binding]; other site 316407004232 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 316407004233 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407004234 Transposase domain (DUF772); Region: DUF772; pfam05598 316407004235 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407004236 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407004237 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407004238 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 316407004239 universal stress protein UspE; Provisional; Region: PRK11175 316407004240 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 316407004241 Ligand Binding Site [chemical binding]; other site 316407004242 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 316407004243 Ligand Binding Site [chemical binding]; other site 316407004244 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 316407004245 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 316407004246 ligand binding site [chemical binding]; other site 316407004247 flexible hinge region; other site 316407004248 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 316407004249 putative switch regulator; other site 316407004250 non-specific DNA interactions [nucleotide binding]; other site 316407004251 DNA binding site [nucleotide binding] 316407004252 sequence specific DNA binding site [nucleotide binding]; other site 316407004253 putative cAMP binding site [chemical binding]; other site 316407004254 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 316407004255 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 316407004256 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 316407004257 DNA binding site [nucleotide binding] 316407004258 active site 316407004259 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 316407004260 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 316407004261 amidohydrolase; Region: amidohydrolases; TIGR01891 316407004262 putative metal binding site [ion binding]; other site 316407004263 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 316407004264 amidohydrolase; Region: amidohydrolases; TIGR01891 316407004265 putative metal binding site [ion binding]; other site 316407004266 dimer interface [polypeptide binding]; other site 316407004267 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 316407004268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407004269 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 316407004270 putative substrate binding pocket [chemical binding]; other site 316407004271 putative dimerization interface [polypeptide binding]; other site 316407004272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 316407004273 Smr domain; Region: Smr; pfam01713 316407004274 PAS domain S-box; Region: sensory_box; TIGR00229 316407004275 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 316407004276 putative active site [active] 316407004277 heme pocket [chemical binding]; other site 316407004278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004279 metal binding site [ion binding]; metal-binding site 316407004280 active site 316407004281 I-site; other site 316407004282 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 316407004283 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 316407004284 Cl binding site [ion binding]; other site 316407004285 oligomer interface [polypeptide binding]; other site 316407004286 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 316407004287 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 316407004288 ATP binding site [chemical binding]; other site 316407004289 Mg++ binding site [ion binding]; other site 316407004290 motif III; other site 316407004291 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 316407004292 nucleotide binding region [chemical binding]; other site 316407004293 ATP-binding site [chemical binding]; other site 316407004294 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 316407004295 putative RNA binding site [nucleotide binding]; other site 316407004296 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 316407004297 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 316407004298 Ligand Binding Site [chemical binding]; other site 316407004299 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 316407004300 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316407004301 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 316407004302 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 316407004303 Int/Topo IB signature motif; other site 316407004304 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 316407004305 Protein of unknown function (DUF1187); Region: DUF1187; pfam06688 316407004306 restriction alleviation and modification protein; Reviewed; Region: lar; PRK09710 316407004307 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 316407004308 exonuclease VIII; Reviewed; Region: PRK09709 316407004309 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 316407004310 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 316407004311 hypothetical protein; Reviewed; Region: PRK09790 316407004312 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 316407004313 Superinfection exclusion protein B; Region: SieB; pfam14163 316407004314 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 316407004315 UBA-like domain; Region: UBA_4; pfam14555 316407004316 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 316407004317 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 316407004318 sequence-specific DNA binding site [nucleotide binding]; other site 316407004319 salt bridge; other site 316407004320 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 316407004321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3756 316407004322 primosomal protein DnaI; Provisional; Region: PRK02854 316407004323 putative replication protein; Provisional; Region: PRK12377 316407004324 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 316407004325 Walker A motif; other site 316407004326 ATP binding site [chemical binding]; other site 316407004327 Walker B motif; other site 316407004328 arginine finger; other site 316407004329 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 316407004330 Bacteriophage Rz lysis protein; Region: Phage_lysis; pfam03245 316407004331 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 316407004332 Cation transport protein; Region: TrkH; cl17365 316407004333 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 316407004334 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 316407004335 ParB-like nuclease domain; Region: ParBc; pfam02195 316407004336 Phage-related minor tail protein [Function unknown]; Region: COG5281 316407004337 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 316407004338 ECK1366:JW5884+JW5904:b4570; Rac prophage region; hypothetical protein 316407004339 'ECK1366:JW5884:b1369; Rac prophage region; hypothetical protein, N-ter fragment' 316407004340 Transposase domain (DUF772); Region: DUF772; pfam05598 316407004341 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407004342 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407004343 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407004344 'ECK1366:JW5904:b1371; Rac prophage region; hypothetical protein, C-ter fragment' 316407004345 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 316407004346 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 316407004347 Phage Tail Collar Domain; Region: Collar; pfam07484 316407004348 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407004349 multiple promoter invertase; Provisional; Region: mpi; PRK13413 316407004350 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316407004351 catalytic residues [active] 316407004352 catalytic nucleophile [active] 316407004353 Presynaptic Site I dimer interface [polypeptide binding]; other site 316407004354 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316407004355 Synaptic Flat tetramer interface [polypeptide binding]; other site 316407004356 Synaptic Site I dimer interface [polypeptide binding]; other site 316407004357 DNA binding site [nucleotide binding] 316407004358 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 316407004359 DNA-binding interface [nucleotide binding]; DNA binding site 316407004360 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 316407004361 Ligand Binding Site [chemical binding]; other site 316407004362 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 316407004363 trimer interface [polypeptide binding]; other site 316407004364 eyelet of channel; other site 316407004365 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 316407004366 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 316407004367 dimer interface [polypeptide binding]; other site 316407004368 PYR/PP interface [polypeptide binding]; other site 316407004369 TPP binding site [chemical binding]; other site 316407004370 substrate binding site [chemical binding]; other site 316407004371 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 316407004372 Domain of unknown function; Region: EKR; pfam10371 316407004373 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 316407004374 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 316407004375 TPP-binding site [chemical binding]; other site 316407004376 dimer interface [polypeptide binding]; other site 316407004377 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 316407004378 heat-inducible protein; Provisional; Region: PRK10449 316407004379 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 316407004380 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316407004381 putative ligand binding site [chemical binding]; other site 316407004382 putative NAD binding site [chemical binding]; other site 316407004383 catalytic site [active] 316407004384 hypothetical protein; Provisional; Region: PRK10695 316407004385 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 316407004386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 316407004387 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 316407004388 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 316407004389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407004390 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 316407004391 NAD(P) binding site [chemical binding]; other site 316407004392 catalytic residues [active] 316407004393 tyramine oxidase; Provisional; Region: tynA; PRK14696 316407004394 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 316407004395 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 316407004396 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 316407004397 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 316407004398 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 316407004399 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 316407004400 substrate binding site [chemical binding]; other site 316407004401 dimer interface [polypeptide binding]; other site 316407004402 NADP binding site [chemical binding]; other site 316407004403 catalytic residues [active] 316407004404 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 316407004405 substrate binding site [chemical binding]; other site 316407004406 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 316407004407 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 316407004408 phenylacetate-CoA oxygenase, PaaI subunit; Region: PA_CoA_Oxy3; TIGR02158 316407004409 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 316407004410 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 316407004411 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 316407004412 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 316407004413 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 316407004414 FAD binding pocket [chemical binding]; other site 316407004415 FAD binding motif [chemical binding]; other site 316407004416 phosphate binding motif [ion binding]; other site 316407004417 beta-alpha-beta structure motif; other site 316407004418 NAD(p) ribose binding residues [chemical binding]; other site 316407004419 NAD binding pocket [chemical binding]; other site 316407004420 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 316407004421 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 316407004422 catalytic loop [active] 316407004423 iron binding site [ion binding]; other site 316407004424 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 316407004425 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 316407004426 substrate binding site [chemical binding]; other site 316407004427 oxyanion hole (OAH) forming residues; other site 316407004428 trimer interface [polypeptide binding]; other site 316407004429 enoyl-CoA hydratase; Provisional; Region: PRK08140 316407004430 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 316407004431 substrate binding site [chemical binding]; other site 316407004432 oxyanion hole (OAH) forming residues; other site 316407004433 trimer interface [polypeptide binding]; other site 316407004434 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 316407004435 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316407004436 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407004437 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407004438 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 316407004439 CoenzymeA binding site [chemical binding]; other site 316407004440 subunit interaction site [polypeptide binding]; other site 316407004441 PHB binding site; other site 316407004442 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 316407004443 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 316407004444 dimer interface [polypeptide binding]; other site 316407004445 active site 316407004446 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 316407004447 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 316407004448 active site 316407004449 AMP binding site [chemical binding]; other site 316407004450 homodimer interface [polypeptide binding]; other site 316407004451 acyl-activating enzyme (AAE) consensus motif; other site 316407004452 CoA binding site [chemical binding]; other site 316407004453 PaaX-like protein; Region: PaaX; pfam07848 316407004454 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 316407004455 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 316407004456 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 316407004457 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 316407004458 putative trimer interface [polypeptide binding]; other site 316407004459 putative metal binding site [ion binding]; other site 316407004460 ECK1398:JW5802+JW1402:b4492; predicted outer membrane protein 316407004461 'ECK1398:JW5802:b1401; predicted outer membrane protein, N-ter fragment' 316407004462 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407004463 HTH-like domain; Region: HTH_21; pfam13276 316407004464 Integrase core domain; Region: rve; pfam00665 316407004465 Integrase core domain; Region: rve_3; pfam13683 316407004466 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407004467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407004468 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316407004469 Helix-turn-helix domain; Region: HTH_38; pfam13936 316407004470 Homeodomain-like domain; Region: HTH_32; pfam13565 316407004471 Integrase core domain; Region: rve; pfam00665 316407004472 'ECK1398:JW1402:b1405; predicted outer membrane protein, C-ter fragment' 316407004473 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 316407004474 active site 316407004475 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407004476 catalytic tetrad [active] 316407004477 Protein of unknown function (DUF342); Region: DUF342; cl19219 316407004478 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 316407004479 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316407004480 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 316407004481 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 316407004482 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316407004483 Putative methyltransferase; Region: Methyltransf_20; pfam12147 316407004484 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 316407004485 S-adenosylmethionine binding site [chemical binding]; other site 316407004486 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 316407004487 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316407004488 active site 316407004489 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cd00127 316407004490 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 316407004491 active site 316407004492 catalytic residues [active] 316407004493 azoreductase; Reviewed; Region: PRK00170 316407004494 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 316407004495 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 316407004496 ATP binding site [chemical binding]; other site 316407004497 putative Mg++ binding site [ion binding]; other site 316407004498 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 316407004499 nucleotide binding region [chemical binding]; other site 316407004500 ATP-binding site [chemical binding]; other site 316407004501 Helicase associated domain (HA2); Region: HA2; pfam04408 316407004502 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 316407004503 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 316407004504 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 316407004505 putative active site [active] 316407004506 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 316407004507 NAD binding site [chemical binding]; other site 316407004508 catalytic residues [active] 316407004509 substrate binding site [chemical binding]; other site 316407004510 ECK1409:JW5906+JW1413:b4493; glyceraldehyde-3-phosphate dehydrogenase C 316407004511 'ECK1409:JW1413:b1416; glyceraldehyde-3-phosphate dehydrogenase C, N-ter fragment' 316407004512 'ECK1409:JW5906:b1417; glyceraldehyde-3-phosphate dehydrogenase C, C-ter fragment' 316407004513 cytochrome b561; Provisional; Region: PRK11513 316407004514 hypothetical protein; Provisional; Region: PRK10040 316407004515 small toxic polypeptide; Provisional; Region: PRK09738 316407004516 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 316407004517 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316407004518 dimer interface [polypeptide binding]; other site 316407004519 ligand binding site [chemical binding]; other site 316407004520 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 316407004521 dimerization interface [polypeptide binding]; other site 316407004522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316407004523 dimer interface [polypeptide binding]; other site 316407004524 putative CheW interface [polypeptide binding]; other site 316407004525 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 316407004526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407004527 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 316407004528 dimerization interface [polypeptide binding]; other site 316407004529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 316407004530 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 316407004531 hypothetical protein; Provisional; Region: PRK11415 316407004532 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316407004533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407004534 Coenzyme A binding pocket [chemical binding]; other site 316407004535 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 316407004536 putative trimer interface [polypeptide binding]; other site 316407004537 putative CoA binding site [chemical binding]; other site 316407004538 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 316407004539 putative trimer interface [polypeptide binding]; other site 316407004540 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 316407004541 putative CoA binding site [chemical binding]; other site 316407004542 putative trimer interface [polypeptide binding]; other site 316407004543 putative CoA binding site [chemical binding]; other site 316407004544 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 316407004545 gating phenylalanine in ion channel; other site 316407004546 tellurite resistance protein TehB; Provisional; Region: PRK11207 316407004547 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 316407004548 S-adenosylmethionine binding site [chemical binding]; other site 316407004549 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 316407004550 ECK1425:JW5227+JW5961:b4578; predicted transposase 316407004551 'ECK1425:JW5227:b4530; predicted transposase, N-ter fragment' 316407004552 'ECK1425:JW5961:b4531; predicted transposase, C-ter fragment' 316407004553 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 316407004554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 316407004555 Probable transposase; Region: OrfB_IS605; pfam01385 316407004556 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 316407004557 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 316407004558 benzoate transporter; Region: benE; TIGR00843 316407004559 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316407004560 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 316407004561 non-specific DNA binding site [nucleotide binding]; other site 316407004562 salt bridge; other site 316407004563 sequence-specific DNA binding site [nucleotide binding]; other site 316407004564 Cupin domain; Region: Cupin_2; pfam07883 316407004565 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316407004566 Collagenase; Region: DUF3656; pfam12392 316407004567 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 316407004568 YcfA-like protein; Region: YcfA; pfam07927 316407004569 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 316407004570 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 316407004571 sequence-specific DNA binding site [nucleotide binding]; other site 316407004572 salt bridge; other site 316407004573 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 316407004574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407004575 DNA-binding site [nucleotide binding]; DNA binding site 316407004576 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 316407004577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407004578 homodimer interface [polypeptide binding]; other site 316407004579 catalytic residue [active] 316407004580 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 316407004581 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 316407004582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407004583 Walker A/P-loop; other site 316407004584 ATP binding site [chemical binding]; other site 316407004585 Q-loop/lid; other site 316407004586 ABC transporter signature motif; other site 316407004587 Walker B; other site 316407004588 D-loop; other site 316407004589 H-loop/switch region; other site 316407004590 TOBE domain; Region: TOBE_2; pfam08402 316407004591 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 316407004592 dimer interface [polypeptide binding]; other site 316407004593 conserved gate region; other site 316407004594 putative PBP binding loops; other site 316407004595 ABC-ATPase subunit interface; other site 316407004596 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 316407004597 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 316407004598 dimer interface [polypeptide binding]; other site 316407004599 conserved gate region; other site 316407004600 putative PBP binding loops; other site 316407004601 ABC-ATPase subunit interface; other site 316407004602 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 316407004603 tetrameric interface [polypeptide binding]; other site 316407004604 NAD binding site [chemical binding]; other site 316407004605 catalytic residues [active] 316407004606 substrate binding site [chemical binding]; other site 316407004607 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 316407004608 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 316407004609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 316407004610 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316407004611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407004612 Coenzyme A binding pocket [chemical binding]; other site 316407004613 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 316407004614 Prostaglandin dehydrogenases; Region: PGDH; cd05288 316407004615 NAD(P) binding site [chemical binding]; other site 316407004616 substrate binding site [chemical binding]; other site 316407004617 dimer interface [polypeptide binding]; other site 316407004618 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 316407004619 DNA-binding site [nucleotide binding]; DNA binding site 316407004620 helix_turn_helix gluconate operon transcriptional repressor; Region: HTH_GNTR; smart00345 316407004621 FCD domain; Region: FCD; pfam07729 316407004622 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316407004623 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 316407004624 N-terminal plug; other site 316407004625 ligand-binding site [chemical binding]; other site 316407004626 Uncharacterized conserved protein [Function unknown]; Region: COG3391 316407004627 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 316407004628 L-asparagine permease; Provisional; Region: PRK15049 316407004629 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407004630 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 316407004631 C-terminal domain interface [polypeptide binding]; other site 316407004632 GSH binding site (G-site) [chemical binding]; other site 316407004633 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 316407004634 dimer interface [polypeptide binding]; other site 316407004635 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 316407004636 N-terminal domain interface [polypeptide binding]; other site 316407004637 dimer interface [polypeptide binding]; other site 316407004638 substrate binding pocket (H-site) [chemical binding]; other site 316407004639 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407004640 Erythromycin esterase; Region: Erythro_esteras; cl17110 316407004641 RHS protein; Region: RHS; pfam03527 316407004642 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407004643 potential frameshift: common BLAST hit: gi|291281062|ref|YP_003497880.1| transposase yncI 316407004644 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316407004645 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407004646 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407004647 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407004648 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407004649 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407004650 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407004651 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407004652 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 316407004653 active site 1 [active] 316407004654 dimer interface [polypeptide binding]; other site 316407004655 hexamer interface [polypeptide binding]; other site 316407004656 active site 2 [active] 316407004657 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 316407004658 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 316407004659 hypothetical protein; Provisional; Region: PRK10281 316407004660 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 316407004661 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 316407004662 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 316407004663 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 316407004664 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407004665 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 316407004666 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 316407004667 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 316407004668 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 316407004669 [4Fe-4S] binding site [ion binding]; other site 316407004670 molybdopterin cofactor binding site [chemical binding]; other site 316407004671 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 316407004672 molybdopterin cofactor binding site; other site 316407004673 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 316407004674 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 316407004675 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 316407004676 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 316407004677 aromatic amino acid exporter; Provisional; Region: PRK11689 316407004678 EamA-like transporter family; Region: EamA; pfam00892 316407004679 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 316407004680 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 316407004681 [4Fe-4S] binding site [ion binding]; other site 316407004682 molybdopterin cofactor binding site; other site 316407004683 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 316407004684 molybdopterin cofactor binding site; other site 316407004685 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 316407004686 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407004687 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 316407004688 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 316407004689 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 316407004690 non-specific DNA binding site [nucleotide binding]; other site 316407004691 salt bridge; other site 316407004692 sequence-specific DNA binding site [nucleotide binding]; other site 316407004693 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 316407004694 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 316407004695 NAD binding site [chemical binding]; other site 316407004696 substrate binding site [chemical binding]; other site 316407004697 catalytic Zn binding site [ion binding]; other site 316407004698 tetramer interface [polypeptide binding]; other site 316407004699 structural Zn binding site [ion binding]; other site 316407004700 malate dehydrogenase; Provisional; Region: PRK13529 316407004701 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316407004702 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 316407004703 NAD(P) binding site [chemical binding]; other site 316407004704 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 316407004705 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 316407004706 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 316407004707 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 316407004708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407004709 Walker A/P-loop; other site 316407004710 ATP binding site [chemical binding]; other site 316407004711 Q-loop/lid; other site 316407004712 ABC transporter signature motif; other site 316407004713 Walker B; other site 316407004714 D-loop; other site 316407004715 H-loop/switch region; other site 316407004716 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316407004717 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 316407004718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407004719 Walker A/P-loop; other site 316407004720 ATP binding site [chemical binding]; other site 316407004721 Q-loop/lid; other site 316407004722 ABC transporter signature motif; other site 316407004723 Walker B; other site 316407004724 D-loop; other site 316407004725 H-loop/switch region; other site 316407004726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 316407004727 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 316407004728 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316407004729 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 316407004730 dimer interface [polypeptide binding]; other site 316407004731 conserved gate region; other site 316407004732 putative PBP binding loops; other site 316407004733 ABC-ATPase subunit interface; other site 316407004734 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316407004735 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 316407004736 dimer interface [polypeptide binding]; other site 316407004737 conserved gate region; other site 316407004738 putative PBP binding loops; other site 316407004739 ABC-ATPase subunit interface; other site 316407004740 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316407004741 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 316407004742 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 316407004743 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 316407004744 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 316407004745 putative active site [active] 316407004746 heme pocket [chemical binding]; other site 316407004747 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 316407004748 putative active site [active] 316407004749 heme pocket [chemical binding]; other site 316407004750 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004751 metal binding site [ion binding]; metal-binding site 316407004752 active site 316407004753 I-site; other site 316407004754 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 316407004755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004756 metal binding site [ion binding]; metal-binding site 316407004757 active site 316407004758 I-site; other site 316407004759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 316407004760 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 316407004761 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 316407004762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407004763 catalytic residue [active] 316407004764 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316407004765 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316407004766 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316407004767 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316407004768 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316407004769 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 316407004770 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 316407004771 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 316407004772 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 316407004773 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 316407004774 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 316407004775 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 316407004776 FeS/SAM binding site; other site 316407004777 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316407004778 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316407004779 Sulfatase; Region: Sulfatase; pfam00884 316407004780 transcriptional regulator YdeO; Provisional; Region: PRK09940 316407004781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407004782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407004783 putative oxidoreductase; Provisional; Region: PRK09939 316407004784 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 316407004785 putative molybdopterin cofactor binding site [chemical binding]; other site 316407004786 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 316407004787 putative molybdopterin cofactor binding site; other site 316407004788 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 316407004789 mannosyl binding site [chemical binding]; other site 316407004790 Fimbrial protein; Region: Fimbrial; pfam00419 316407004791 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407004792 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407004793 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316407004794 Outer membrane usher protein; Region: Usher; pfam00577 316407004795 PapC C-terminal domain; Region: PapC_C; pfam13953 316407004796 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316407004797 HipA N-terminal domain; Region: couple_hipA; TIGR03071 316407004798 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 316407004799 HipA-like N-terminal domain; Region: HipA_N; pfam07805 316407004800 HipA-like C-terminal domain; Region: HipA_C; pfam07804 316407004801 beta subunit of N-acylethanolamine-hydrolyzing acid amidase; Region: NAAA-beta; pfam15508 316407004802 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 316407004803 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 316407004804 non-specific DNA binding site [nucleotide binding]; other site 316407004805 salt bridge; other site 316407004806 sequence-specific DNA binding site [nucleotide binding]; other site 316407004807 ECK1502:JW1502:b1509; conserved hypothetical protein 316407004808 putative lipoprotein; Provisional; Region: PRK09707 316407004809 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 316407004810 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 316407004811 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 316407004812 putative N- and C-terminal domain interface [polypeptide binding]; other site 316407004813 putative active site [active] 316407004814 putative MgATP binding site [chemical binding]; other site 316407004815 catalytic site [active] 316407004816 metal binding site [ion binding]; metal-binding site 316407004817 putative carbohydrate binding site [chemical binding]; other site 316407004818 transcriptional regulator LsrR; Provisional; Region: PRK15418 316407004819 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 316407004820 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 316407004821 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 316407004822 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407004823 Walker A/P-loop; other site 316407004824 ATP binding site [chemical binding]; other site 316407004825 Q-loop/lid; other site 316407004826 ABC transporter signature motif; other site 316407004827 Walker B; other site 316407004828 D-loop; other site 316407004829 H-loop/switch region; other site 316407004830 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407004831 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 316407004832 TM-ABC transporter signature motif; other site 316407004833 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 316407004834 TM-ABC transporter signature motif; other site 316407004835 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 316407004836 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 316407004837 ligand binding site [chemical binding]; other site 316407004838 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 316407004839 putative active site; other site 316407004840 catalytic residue [active] 316407004841 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 316407004842 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 316407004843 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 316407004844 S-adenosylmethionine binding site [chemical binding]; other site 316407004845 Predicted membrane protein [Function unknown]; Region: COG3781 316407004846 altronate oxidoreductase; Provisional; Region: PRK03643 316407004847 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316407004848 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316407004849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004850 metal binding site [ion binding]; metal-binding site 316407004851 active site 316407004852 I-site; other site 316407004853 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 316407004854 glutaminase; Provisional; Region: PRK00971 316407004855 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 316407004856 NAD(P) binding site [chemical binding]; other site 316407004857 catalytic residues [active] 316407004858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407004859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407004860 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 316407004861 putative dimerization interface [polypeptide binding]; other site 316407004862 putative arabinose transporter; Provisional; Region: PRK03545 316407004863 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407004864 putative substrate translocation pore; other site 316407004865 inner membrane protein; Provisional; Region: PRK10995 316407004866 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 316407004867 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316407004868 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 316407004869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407004870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407004871 MarB protein; Region: MarB; pfam13999 316407004872 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 316407004873 EamA-like transporter family; Region: EamA; pfam00892 316407004874 EamA-like transporter family; Region: EamA; pfam00892 316407004875 putative transporter; Provisional; Region: PRK10054 316407004876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407004877 putative substrate translocation pore; other site 316407004878 diguanylate cyclase; Provisional; Region: PRK09894 316407004879 Chemoreceptor zinc-binding domain; Region: CZB; pfam13682 316407004880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407004881 metal binding site [ion binding]; metal-binding site 316407004882 active site 316407004883 I-site; other site 316407004884 hypothetical protein; Provisional; Region: PRK10053 316407004885 hypothetical protein; Validated; Region: PRK03657 316407004886 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 316407004887 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316407004888 active site 316407004889 Zn binding site [ion binding]; other site 316407004890 malonic semialdehyde reductase; Provisional; Region: PRK10538 316407004891 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 316407004892 putative NAD(P) binding site [chemical binding]; other site 316407004893 homodimer interface [polypeptide binding]; other site 316407004894 homotetramer interface [polypeptide binding]; other site 316407004895 active site 316407004896 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316407004897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407004898 DNA-binding site [nucleotide binding]; DNA binding site 316407004899 FCD domain; Region: FCD; pfam07729 316407004900 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 316407004901 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 316407004902 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316407004903 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316407004904 metabolite-proton symporter; Region: 2A0106; TIGR00883 316407004905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407004906 putative substrate translocation pore; other site 316407004907 multiple promoter invertase; Provisional; Region: mpi; PRK13413 316407004908 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 316407004909 catalytic residues [active] 316407004910 catalytic nucleophile [active] 316407004911 Presynaptic Site I dimer interface [polypeptide binding]; other site 316407004912 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 316407004913 Synaptic Flat tetramer interface [polypeptide binding]; other site 316407004914 Synaptic Site I dimer interface [polypeptide binding]; other site 316407004915 DNA binding site [nucleotide binding] 316407004916 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 316407004917 DNA-binding interface [nucleotide binding]; DNA binding site 316407004918 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407004919 Phage Tail Collar Domain; Region: Collar; pfam07484 316407004920 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 316407004921 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 316407004922 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 316407004923 GnsA/GnsB family; Region: GnsAB; pfam08178 316407004924 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 316407004925 DNA-binding site [nucleotide binding]; DNA binding site 316407004926 RNA-binding motif; other site 316407004927 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 316407004928 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 316407004929 catalytic residues [active] 316407004930 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 316407004931 Lysis protein S; Region: Lysis_S; pfam04971 316407004932 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 316407004933 DNA-binding site [nucleotide binding]; DNA binding site 316407004934 RNA-binding motif; other site 316407004935 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 316407004936 DNA-binding site [nucleotide binding]; DNA binding site 316407004937 RNA-binding motif; other site 316407004938 Antitermination protein; Region: Antiterm; pfam03589 316407004939 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 316407004940 Antitermination protein; Region: Antiterm; pfam03589 316407004941 Protein of unknown function (DUF968); Region: DUF968; pfam06147 316407004942 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 316407004943 active site 316407004944 Hok/gef family; Region: HOK_GEF; pfam01848 316407004945 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 316407004946 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 316407004947 FlxA-like protein; Region: FlxA; pfam14282 316407004948 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 316407004949 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 316407004950 transcriptional repressor DicA; Reviewed; Region: PRK09706 316407004951 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 316407004952 non-specific DNA binding site [nucleotide binding]; other site 316407004953 salt bridge; other site 316407004954 sequence-specific DNA binding site [nucleotide binding]; other site 316407004955 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 316407004956 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 316407004957 DicB protein; Region: DicB; pfam05358 316407004958 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 316407004959 Integrase core domain; Region: rve; pfam00665 316407004960 Integrase core domain; Region: rve_3; pfam13683 316407004961 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 316407004962 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316407004963 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 316407004964 Int/Topo IB signature motif; other site 316407004965 ECK1574:JW5257:b4534; hypothetical protein 316407004966 putative oxidoreductase; Provisional; Region: PRK10083 316407004967 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 316407004968 putative NAD(P) binding site [chemical binding]; other site 316407004969 catalytic Zn binding site [ion binding]; other site 316407004970 structural Zn binding site [ion binding]; other site 316407004971 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 316407004972 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 316407004973 putative active site pocket [active] 316407004974 putative metal binding site [ion binding]; other site 316407004975 hypothetical protein; Provisional; Region: PRK02237 316407004976 hypothetical protein; Provisional; Region: PRK13659 316407004977 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316407004978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407004979 Coenzyme A binding pocket [chemical binding]; other site 316407004980 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 316407004981 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 316407004982 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 316407004983 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 316407004984 putative [Fe4-S4] binding site [ion binding]; other site 316407004985 putative molybdopterin cofactor binding site [chemical binding]; other site 316407004986 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 316407004987 putative molybdopterin cofactor binding site; other site 316407004988 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 316407004989 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 316407004990 putative [Fe4-S4] binding site [ion binding]; other site 316407004991 putative molybdopterin cofactor binding site [chemical binding]; other site 316407004992 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 316407004993 putative molybdopterin cofactor binding site; other site 316407004994 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 316407004995 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407004996 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 316407004997 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 316407004998 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 316407004999 Cl- selectivity filter; other site 316407005000 Cl- binding residues [ion binding]; other site 316407005001 pore gating glutamate residue; other site 316407005002 dimer interface [polypeptide binding]; other site 316407005003 putative dithiobiotin synthetase; Provisional; Region: PRK12374 316407005004 AAA domain; Region: AAA_26; pfam13500 316407005005 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 316407005006 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407005007 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407005008 nucleotide binding site [chemical binding]; other site 316407005009 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316407005010 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 316407005011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407005012 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 316407005013 dimerization interface [polypeptide binding]; other site 316407005014 substrate binding pocket [chemical binding]; other site 316407005015 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316407005016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005017 putative substrate translocation pore; other site 316407005018 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 316407005019 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 316407005020 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 316407005021 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 316407005022 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 316407005023 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 316407005024 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 316407005025 ligand binding site [chemical binding]; other site 316407005026 homodimer interface [polypeptide binding]; other site 316407005027 NAD(P) binding site [chemical binding]; other site 316407005028 trimer interface B [polypeptide binding]; other site 316407005029 trimer interface A [polypeptide binding]; other site 316407005030 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 316407005031 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407005032 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407005033 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407005034 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 316407005035 Spore germination protein; Region: Spore_permease; cl17796 316407005036 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 316407005037 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 316407005038 NADP binding site [chemical binding]; other site 316407005039 substrate binding pocket [chemical binding]; other site 316407005040 active site 316407005041 GlpM protein; Region: GlpM; pfam06942 316407005042 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 316407005043 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 316407005044 active site 316407005045 phosphorylation site [posttranslational modification] 316407005046 intermolecular recognition site; other site 316407005047 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 316407005048 DNA binding site [nucleotide binding] 316407005049 sensor protein RstB; Provisional; Region: PRK10604 316407005050 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 316407005051 dimerization interface [polypeptide binding]; other site 316407005052 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 316407005053 dimer interface [polypeptide binding]; other site 316407005054 phosphorylation site [posttranslational modification] 316407005055 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 316407005056 ATP binding site [chemical binding]; other site 316407005057 Mg2+ binding site [ion binding]; other site 316407005058 G-X-G motif; other site 316407005059 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 316407005060 fumarate hydratase; Reviewed; Region: fumC; PRK00485 316407005061 Class II fumarases; Region: Fumarase_classII; cd01362 316407005062 active site 316407005063 tetramer interface [polypeptide binding]; other site 316407005064 fumarate hydratase; Provisional; Region: PRK15389 316407005065 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 316407005066 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316407005067 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 316407005068 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 316407005069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 316407005070 putative outer membrane porin protein; Provisional; Region: PRK11379 316407005071 glucuronide transporter; Provisional; Region: PRK09848 316407005072 putative symporter YagG; Provisional; Region: PRK09669; cl15392 316407005073 beta-D-glucuronidase; Provisional; Region: PRK10150 316407005074 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 316407005075 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 316407005076 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 316407005077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316407005078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407005079 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 316407005080 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 316407005081 NAD binding site [chemical binding]; other site 316407005082 substrate binding site [chemical binding]; other site 316407005083 homotetramer interface [polypeptide binding]; other site 316407005084 homodimer interface [polypeptide binding]; other site 316407005085 active site 316407005086 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 316407005087 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407005088 DNA binding site [nucleotide binding] 316407005089 domain linker motif; other site 316407005090 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 316407005091 putative dimerization interface [polypeptide binding]; other site 316407005092 putative ligand binding site [chemical binding]; other site 316407005093 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 316407005094 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 316407005095 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 316407005096 active site turn [active] 316407005097 phosphorylation site [posttranslational modification] 316407005098 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 316407005099 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 316407005100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407005101 homodimer interface [polypeptide binding]; other site 316407005102 catalytic residue [active] 316407005103 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 316407005104 active site 316407005105 purine riboside binding site [chemical binding]; other site 316407005106 putative oxidoreductase; Provisional; Region: PRK11579 316407005107 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407005108 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407005109 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 316407005110 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 316407005111 electron transport complex protein RsxA; Provisional; Region: PRK05151 316407005112 electron transport complex protein RnfB; Provisional; Region: PRK05113 316407005113 Putative Fe-S cluster; Region: FeS; pfam04060 316407005114 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; cl19102 316407005115 electron transport complex protein RnfC; Provisional; Region: PRK05035 316407005116 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 316407005117 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 316407005118 SLBB domain; Region: SLBB; pfam10531 316407005119 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 316407005120 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 316407005121 electron transport complex protein RnfG; Validated; Region: PRK01908 316407005122 electron transport complex RsxE subunit; Provisional; Region: PRK12405 316407005123 endonuclease III; Provisional; Region: PRK10702 316407005124 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316407005125 minor groove reading motif; other site 316407005126 helix-hairpin-helix signature motif; other site 316407005127 substrate binding pocket [chemical binding]; other site 316407005128 active site 316407005129 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 316407005130 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316407005131 putative tripeptide transporter permease; Reviewed; Region: tppB; PRK09584 316407005132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005133 putative substrate translocation pore; other site 316407005134 glutathionine S-transferase; Provisional; Region: PRK10542 316407005135 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 316407005136 C-terminal domain interface [polypeptide binding]; other site 316407005137 GSH binding site (G-site) [chemical binding]; other site 316407005138 dimer interface [polypeptide binding]; other site 316407005139 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 316407005140 N-terminal domain interface [polypeptide binding]; other site 316407005141 dimer interface [polypeptide binding]; other site 316407005142 substrate binding pocket (H-site) [chemical binding]; other site 316407005143 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 316407005144 dimer interface [polypeptide binding]; other site 316407005145 pyridoxal binding site [chemical binding]; other site 316407005146 ATP binding site [chemical binding]; other site 316407005147 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 316407005148 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 316407005149 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 316407005150 active site 316407005151 HIGH motif; other site 316407005152 dimer interface [polypeptide binding]; other site 316407005153 KMSKS motif; other site 316407005154 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 316407005155 RNA binding surface [nucleotide binding]; other site 316407005156 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 316407005157 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 316407005158 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 316407005159 lysozyme inhibitor; Provisional; Region: PRK11372 316407005160 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 316407005161 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 316407005162 transcriptional regulator SlyA; Provisional; Region: PRK03573 316407005163 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316407005164 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 316407005165 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316407005166 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407005167 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407005168 Fusaric acid resistance protein family; Region: FUSC; pfam04632 316407005169 Fusaric acid resistance protein-like; Region: FUSC_2; cl19401 316407005170 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 316407005171 E-class dimer interface [polypeptide binding]; other site 316407005172 P-class dimer interface [polypeptide binding]; other site 316407005173 active site 316407005174 Cu2+ binding site [ion binding]; other site 316407005175 Zn2+ binding site [ion binding]; other site 316407005176 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 316407005177 active site 316407005178 catalytic tetrad [active] 316407005179 Predicted Fe-S protein [General function prediction only]; Region: COG3313 316407005180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316407005181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407005182 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 316407005183 FMN binding site [chemical binding]; other site 316407005184 active site 316407005185 substrate binding site [chemical binding]; other site 316407005186 catalytic residue [active] 316407005187 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 316407005188 dimer interface [polypeptide binding]; other site 316407005189 active site 316407005190 metal binding site [ion binding]; metal-binding site 316407005191 glutathione binding site [chemical binding]; other site 316407005192 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 316407005193 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 316407005194 dimer interface [polypeptide binding]; other site 316407005195 catalytic site [active] 316407005196 putative active site [active] 316407005197 putative substrate binding site [chemical binding]; other site 316407005198 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 316407005199 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 316407005200 ATP binding site [chemical binding]; other site 316407005201 putative Mg++ binding site [ion binding]; other site 316407005202 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 316407005203 nucleotide binding region [chemical binding]; other site 316407005204 ATP-binding site [chemical binding]; other site 316407005205 DEAD/H associated; Region: DEAD_assoc; pfam08494 316407005206 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 316407005207 putative GSH binding site [chemical binding]; other site 316407005208 catalytic residues [active] 316407005209 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 316407005210 NlpC/P60 family; Region: NLPC_P60; pfam00877 316407005211 superoxide dismutase; Provisional; Region: PRK10543 316407005212 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316407005213 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316407005214 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316407005215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005216 putative substrate translocation pore; other site 316407005217 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 316407005218 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407005219 DNA binding site [nucleotide binding] 316407005220 domain linker motif; other site 316407005221 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 316407005222 dimerization interface [polypeptide binding]; other site 316407005223 ligand binding site [chemical binding]; other site 316407005224 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316407005225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407005226 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 316407005227 dimerization interface [polypeptide binding]; other site 316407005228 putative transporter; Provisional; Region: PRK11043 316407005229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005230 putative substrate translocation pore; other site 316407005231 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 316407005232 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 316407005233 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 316407005234 S-adenosylmethionine binding site [chemical binding]; other site 316407005235 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 316407005236 Lumazine binding domain; Region: Lum_binding; pfam00677 316407005237 Lumazine binding domain; Region: Lum_binding; pfam00677 316407005238 multidrug efflux protein; Reviewed; Region: PRK01766 316407005239 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 316407005240 cation binding site [ion binding]; other site 316407005241 hypothetical protein; Provisional; Region: PRK09945 316407005242 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316407005243 putative monooxygenase; Provisional; Region: PRK11118 316407005244 hypothetical protein; Provisional; Region: PRK09897 316407005245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 316407005246 hypothetical protein; Provisional; Region: PRK09946 316407005247 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 316407005248 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 316407005249 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 316407005250 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407005251 hypothetical protein; Provisional; Region: PRK09947 316407005252 putative oxidoreductase; Provisional; Region: PRK09849 316407005253 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 316407005254 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 316407005255 hypothetical protein; Provisional; Region: PRK09898 316407005256 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407005257 hypothetical protein; Provisional; Region: PRK10292 316407005258 pyruvate kinase; Provisional; Region: PRK09206 316407005259 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 316407005260 domain interfaces; other site 316407005261 active site 316407005262 murein lipoprotein; Provisional; Region: PRK15396 316407005263 L,D-transpeptidase; Provisional; Region: PRK10260 316407005264 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407005265 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407005266 cysteine desufuration protein SufE; Provisional; Region: PRK09296 316407005267 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 316407005268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407005269 catalytic residue [active] 316407005270 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 316407005271 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 316407005272 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 316407005273 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 316407005274 Walker A/P-loop; other site 316407005275 ATP binding site [chemical binding]; other site 316407005276 Q-loop/lid; other site 316407005277 ABC transporter signature motif; other site 316407005278 Walker B; other site 316407005279 D-loop; other site 316407005280 H-loop/switch region; other site 316407005281 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 316407005282 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 316407005283 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 316407005284 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 316407005285 CoenzymeA binding site [chemical binding]; other site 316407005286 subunit interaction site [polypeptide binding]; other site 316407005287 PHB binding site; other site 316407005288 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316407005289 FAD binding domain; Region: FAD_binding_4; pfam01565 316407005290 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 316407005291 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 316407005292 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407005293 putative inner membrane protein; Provisional; Region: PRK10983 316407005294 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 316407005295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005296 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407005297 putative substrate translocation pore; other site 316407005298 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407005300 putative substrate translocation pore; other site 316407005301 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 316407005302 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316407005303 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316407005304 shikimate binding site; other site 316407005305 NAD(P) binding site [chemical binding]; other site 316407005306 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 316407005307 active site 316407005308 catalytic residue [active] 316407005309 dimer interface [polypeptide binding]; other site 316407005310 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 316407005311 Coenzyme A transferase; Region: CoA_trans; smart00882 316407005312 Coenzyme A transferase; Region: CoA_trans; cl17247 316407005313 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 316407005314 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 316407005315 active site 316407005316 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316407005317 Cupin domain; Region: Cupin_2; pfam07883 316407005318 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 316407005319 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407005320 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 316407005321 Ligand binding site [chemical binding]; other site 316407005322 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 316407005323 Electron transfer flavoprotein domain; Region: ETF; pfam01012 316407005324 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316407005325 oxidoreductase; Provisional; Region: PRK10015 316407005326 putative oxidoreductase FixC; Provisional; Region: PRK10157 316407005327 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316407005328 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 316407005329 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 316407005330 acyl-activating enzyme (AAE) consensus motif; other site 316407005331 putative AMP binding site [chemical binding]; other site 316407005332 putative active site [active] 316407005333 putative CoA binding site [chemical binding]; other site 316407005334 phosphoenolpyruvate synthase; Validated; Region: PRK06464 316407005335 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 316407005336 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407005337 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316407005338 PEP synthetase regulatory protein; Provisional; Region: PRK05339 316407005339 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 316407005340 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 316407005341 hypothetical protein; Validated; Region: PRK00029 316407005342 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 316407005343 NlpC/P60 family; Region: NLPC_P60; pfam00877 316407005344 ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]; Region: BtuD; COG4138 316407005345 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316407005346 Walker A/P-loop; other site 316407005347 ATP binding site [chemical binding]; other site 316407005348 Q-loop/lid; other site 316407005349 ABC transporter signature motif; other site 316407005350 Walker B; other site 316407005351 D-loop; other site 316407005352 H-loop/switch region; other site 316407005353 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 316407005354 catalytic residues [active] 316407005355 dimer interface [polypeptide binding]; other site 316407005356 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 316407005357 ABC-ATPase subunit interface; other site 316407005358 dimer interface [polypeptide binding]; other site 316407005359 putative PBP binding regions; other site 316407005360 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 316407005361 DNA binding site [nucleotide binding] 316407005362 dimer interface [polypeptide binding]; other site 316407005363 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 316407005364 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 316407005365 putative tRNA-binding site [nucleotide binding]; other site 316407005366 B3/4 domain; Region: B3_4; pfam03483 316407005367 tRNA synthetase B5 domain; Region: B5; smart00874 316407005368 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 316407005369 dimer interface [polypeptide binding]; other site 316407005370 motif 1; other site 316407005371 motif 3; other site 316407005372 motif 2; other site 316407005373 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 316407005374 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 316407005375 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 316407005376 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 316407005377 dimer interface [polypeptide binding]; other site 316407005378 motif 1; other site 316407005379 active site 316407005380 motif 2; other site 316407005381 motif 3; other site 316407005382 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 316407005383 23S rRNA binding site [nucleotide binding]; other site 316407005384 L21 binding site [polypeptide binding]; other site 316407005385 L13 binding site [polypeptide binding]; other site 316407005386 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 316407005387 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 316407005388 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 316407005389 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 316407005390 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 316407005391 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 316407005392 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 316407005393 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 316407005394 active site 316407005395 dimer interface [polypeptide binding]; other site 316407005396 motif 1; other site 316407005397 motif 2; other site 316407005398 motif 3; other site 316407005399 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 316407005400 anticodon binding site; other site 316407005401 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 316407005402 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 316407005403 putative substrate binding site [chemical binding]; other site 316407005404 putative ATP binding site [chemical binding]; other site 316407005405 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 316407005406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 316407005407 Phosphotransferase enzyme family; Region: APH; pfam01636 316407005408 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 316407005409 active site 316407005410 substrate binding site [chemical binding]; other site 316407005411 ATP binding site [chemical binding]; other site 316407005412 YniB-like protein; Region: YniB; pfam14002 316407005413 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 316407005414 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316407005415 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 316407005416 motif II; other site 316407005417 inner membrane protein; Provisional; Region: PRK11648 316407005418 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 316407005419 Cell division activator CedA; Region: CedA; pfam10729 316407005420 hydroperoxidase II; Provisional; Region: katE; PRK11249 316407005421 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 316407005422 tetramer interface [polypeptide binding]; other site 316407005423 heme binding pocket [chemical binding]; other site 316407005424 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 316407005425 domain interactions; other site 316407005426 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 316407005427 putative active site [active] 316407005428 YdjC motif; other site 316407005429 Mg binding site [ion binding]; other site 316407005430 putative homodimer interface [polypeptide binding]; other site 316407005431 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 316407005432 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 316407005433 NAD binding site [chemical binding]; other site 316407005434 sugar binding site [chemical binding]; other site 316407005435 divalent metal binding site [ion binding]; other site 316407005436 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316407005437 dimer interface [polypeptide binding]; other site 316407005438 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 316407005439 Cupin domain; Region: Cupin_2; cl17218 316407005440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407005441 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 316407005442 methionine cluster; other site 316407005443 active site 316407005444 phosphorylation site [posttranslational modification] 316407005445 metal binding site [ion binding]; metal-binding site 316407005446 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 316407005447 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 316407005448 active site 316407005449 P-loop; other site 316407005450 phosphorylation site [posttranslational modification] 316407005451 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 316407005452 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 316407005453 homodimer interface [polypeptide binding]; other site 316407005454 NAD binding pocket [chemical binding]; other site 316407005455 ATP binding pocket [chemical binding]; other site 316407005456 Mg binding site [ion binding]; other site 316407005457 active-site loop [active] 316407005458 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 316407005459 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316407005460 GIY-YIG motif/motif A; other site 316407005461 active site 316407005462 catalytic site [active] 316407005463 putative DNA binding site [nucleotide binding]; other site 316407005464 metal binding site [ion binding]; metal-binding site 316407005465 hypothetical protein; Provisional; Region: PRK11396 316407005466 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 316407005467 dimer interface [polypeptide binding]; other site 316407005468 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 316407005469 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 316407005470 putative active site [active] 316407005471 Zn binding site [ion binding]; other site 316407005472 succinylarginine dihydrolase; Provisional; Region: PRK13281 316407005473 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 316407005474 NAD(P) binding site [chemical binding]; other site 316407005475 catalytic residues [active] 316407005476 arginine succinyltransferase; Provisional; Region: PRK10456 316407005477 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407005478 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 316407005479 inhibitor-cofactor binding pocket; inhibition site 316407005480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407005481 catalytic residue [active] 316407005482 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 316407005483 putative catalytic site [active] 316407005484 putative phosphate binding site [ion binding]; other site 316407005485 active site 316407005486 metal binding site A [ion binding]; metal-binding site 316407005487 DNA binding site [nucleotide binding] 316407005488 putative AP binding site [nucleotide binding]; other site 316407005489 putative metal binding site B [ion binding]; other site 316407005490 Uncharacterized conserved protein [Function unknown]; Region: COG0398 316407005491 Uncharacterized conserved protein [Function unknown]; Region: COG0398 316407005492 Uncharacterized conserved protein [Function unknown]; Region: COG2128 316407005493 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 316407005494 hypothetical protein; Provisional; Region: PRK11622 316407005495 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 316407005496 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 316407005497 putative PBP binding loops; other site 316407005498 ABC-ATPase subunit interface; other site 316407005499 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 316407005500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407005501 Walker A/P-loop; other site 316407005502 ATP binding site [chemical binding]; other site 316407005503 Q-loop/lid; other site 316407005504 ABC transporter signature motif; other site 316407005505 Walker B; other site 316407005506 D-loop; other site 316407005507 H-loop/switch region; other site 316407005508 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 316407005509 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 316407005510 active site residue [active] 316407005511 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 316407005512 active site residue [active] 316407005513 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 316407005514 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 316407005515 active site 316407005516 8-oxo-dGMP binding site [chemical binding]; other site 316407005517 nudix motif; other site 316407005518 metal binding site [ion binding]; metal-binding site 316407005519 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 316407005520 glutamate dehydrogenase; Provisional; Region: PRK09414 316407005521 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 316407005522 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 316407005523 NAD(P) binding site [chemical binding]; other site 316407005524 hypothetical protein; Provisional; Region: PRK11380 316407005525 DNA topoisomerase III; Provisional; Region: PRK07726 316407005526 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 316407005527 active site 316407005528 putative interdomain interaction site [polypeptide binding]; other site 316407005529 putative metal-binding site [ion binding]; other site 316407005530 putative nucleotide binding site [chemical binding]; other site 316407005531 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 316407005532 domain I; other site 316407005533 DNA binding groove [nucleotide binding] 316407005534 phosphate binding site [ion binding]; other site 316407005535 domain II; other site 316407005536 domain III; other site 316407005537 nucleotide binding site [chemical binding]; other site 316407005538 catalytic site [active] 316407005539 domain IV; other site 316407005540 selenophosphate synthetase; Provisional; Region: PRK00943 316407005541 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 316407005542 dimerization interface [polypeptide binding]; other site 316407005543 putative ATP binding site [chemical binding]; other site 316407005544 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 316407005545 putative FMN binding site [chemical binding]; other site 316407005546 protease 4; Provisional; Region: PRK10949 316407005547 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 316407005548 tandem repeat interface [polypeptide binding]; other site 316407005549 oligomer interface [polypeptide binding]; other site 316407005550 active site residues [active] 316407005551 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 316407005552 tandem repeat interface [polypeptide binding]; other site 316407005553 oligomer interface [polypeptide binding]; other site 316407005554 active site residues [active] 316407005555 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 316407005556 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 316407005557 active site 316407005558 homodimer interface [polypeptide binding]; other site 316407005559 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 316407005560 catalytic triad [active] 316407005561 metal binding site [ion binding]; metal-binding site 316407005562 conserved cis-peptide bond; other site 316407005563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005564 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 316407005565 putative substrate translocation pore; other site 316407005566 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316407005567 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316407005568 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407005569 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 316407005570 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407005571 active site 316407005572 catalytic tetrad [active] 316407005573 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 316407005574 substrate binding site [chemical binding]; other site 316407005575 ATP binding site [chemical binding]; other site 316407005576 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 316407005577 intersubunit interface [polypeptide binding]; other site 316407005578 active site 316407005579 zinc binding site [ion binding]; other site 316407005580 Na+ binding site [ion binding]; other site 316407005581 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407005582 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 316407005583 inhibitor binding site; inhibition site 316407005584 catalytic Zn binding site [ion binding]; other site 316407005585 structural Zn binding site [ion binding]; other site 316407005586 NADP binding site [chemical binding]; other site 316407005587 tetramer interface [polypeptide binding]; other site 316407005588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005589 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407005590 putative substrate translocation pore; other site 316407005591 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407005592 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 316407005593 putative NAD(P) binding site [chemical binding]; other site 316407005594 catalytic Zn binding site [ion binding]; other site 316407005595 structural Zn binding site [ion binding]; other site 316407005596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 316407005597 methionine sulfoxide reductase B; Provisional; Region: PRK00222 316407005598 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 316407005599 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316407005600 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316407005601 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 316407005602 active site 316407005603 phosphate binding residues; other site 316407005604 catalytic residues [active] 316407005605 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 316407005606 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407005607 active site 316407005608 catalytic tetrad [active] 316407005609 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 316407005610 PrkA family serine protein kinase; Provisional; Region: PRK15455 316407005611 PrkA AAA domain; Region: AAA_PrkA; pfam08298 316407005612 Walker A motif; other site 316407005613 ATP binding site [chemical binding]; other site 316407005614 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 316407005615 Uncharacterized conserved protein [Function unknown]; Region: COG2718 316407005616 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 316407005617 metal ion-dependent adhesion site (MIDAS); other site 316407005618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407005619 metal binding site [ion binding]; metal-binding site 316407005620 active site 316407005621 I-site; other site 316407005622 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407005623 metal binding site [ion binding]; metal-binding site 316407005624 active site 316407005625 I-site; other site 316407005626 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 316407005627 putative deacylase active site [active] 316407005628 Predicted membrane protein [Function unknown]; Region: COG2707 316407005629 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407005630 cyanate transporter; Region: CynX; TIGR00896 316407005631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005632 putative substrate translocation pore; other site 316407005633 Uncharacterized conserved protein [Function unknown]; Region: COG3189 316407005634 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 316407005635 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407005636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407005637 metal binding site [ion binding]; metal-binding site 316407005638 active site 316407005639 I-site; other site 316407005640 hypothetical protein; Provisional; Region: PRK10457 316407005641 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 316407005642 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 316407005643 leucine export protein LeuE; Provisional; Region: PRK10958 316407005644 transcriptional activator TtdR; Provisional; Region: PRK09801 316407005645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407005646 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 316407005647 putative effector binding pocket; other site 316407005648 putative dimerization interface [polypeptide binding]; other site 316407005649 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 316407005650 putative transporter; Provisional; Region: PRK09950 316407005651 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316407005652 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 316407005653 [2Fe-2S] cluster binding site [ion binding]; other site 316407005654 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 316407005655 putative alpha subunit interface [polypeptide binding]; other site 316407005656 putative active site [active] 316407005657 putative substrate binding site [chemical binding]; other site 316407005658 Fe binding site [ion binding]; other site 316407005659 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 316407005660 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 316407005661 FMN-binding pocket [chemical binding]; other site 316407005662 flavin binding motif; other site 316407005663 phosphate binding motif [ion binding]; other site 316407005664 beta-alpha-beta structure motif; other site 316407005665 NAD binding pocket [chemical binding]; other site 316407005666 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 316407005667 catalytic loop [active] 316407005668 iron binding site [ion binding]; other site 316407005669 ribonuclease D; Provisional; Region: PRK10829 316407005670 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 316407005671 catalytic site [active] 316407005672 putative active site [active] 316407005673 putative substrate binding site [chemical binding]; other site 316407005674 Helicase and RNase D C-terminal; Region: HRDC; smart00341 316407005675 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 316407005676 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 316407005677 acyl-activating enzyme (AAE) consensus motif; other site 316407005678 putative AMP binding site [chemical binding]; other site 316407005679 putative active site [active] 316407005680 putative CoA binding site [chemical binding]; other site 316407005681 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 316407005682 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 316407005683 Glycoprotease family; Region: Peptidase_M22; pfam00814 316407005684 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 316407005685 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 316407005686 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 316407005687 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 316407005688 homotrimer interaction site [polypeptide binding]; other site 316407005689 putative active site [active] 316407005690 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 316407005691 hypothetical protein; Provisional; Region: PRK05114 316407005692 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 316407005693 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 316407005694 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 316407005695 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 316407005696 putative active site [active] 316407005697 putative CoA binding site [chemical binding]; other site 316407005698 nudix motif; other site 316407005699 metal binding site [ion binding]; metal-binding site 316407005700 L-serine deaminase; Provisional; Region: PRK15023 316407005701 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316407005702 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316407005703 phage resistance protein; Provisional; Region: PRK10551 316407005704 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316407005705 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 316407005706 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316407005707 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316407005708 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 316407005709 Transporter associated domain; Region: CorC_HlyC; smart01091 316407005710 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 316407005711 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 316407005712 active pocket/dimerization site; other site 316407005713 active site 316407005714 phosphorylation site [posttranslational modification] 316407005715 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 316407005716 active site 316407005717 phosphorylation site [posttranslational modification] 316407005718 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 316407005719 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 316407005720 hypothetical protein; Provisional; Region: PRK02913 316407005721 hypothetical protein; Provisional; Region: PRK11469 316407005722 Domain of unknown function DUF; Region: DUF204; pfam02659 316407005723 Domain of unknown function DUF; Region: DUF204; pfam02659 316407005724 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316407005725 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 316407005726 S-adenosylmethionine binding site [chemical binding]; other site 316407005727 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 316407005728 DNA-binding site [nucleotide binding]; DNA binding site 316407005729 RNA-binding motif; other site 316407005730 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 316407005731 YebO-like protein; Region: YebO; pfam13974 316407005732 PhoPQ regulatory protein; Provisional; Region: PRK10299 316407005733 YobH-like protein; Region: YobH; pfam13996 316407005734 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 316407005735 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 316407005736 dimerization interface [polypeptide binding]; other site 316407005737 putative Zn2+ binding site [ion binding]; other site 316407005738 putative DNA binding site [nucleotide binding]; other site 316407005739 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407005740 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407005741 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407005742 putative substrate translocation pore; other site 316407005743 Predicted integral membrane protein [Function unknown]; Region: COG5521 316407005744 heat shock protein HtpX; Provisional; Region: PRK05457 316407005745 carboxy-terminal protease; Provisional; Region: PRK11186 316407005746 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 316407005747 protein binding site [polypeptide binding]; other site 316407005748 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 316407005749 Catalytic dyad [active] 316407005750 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 316407005751 ProP expression regulator; Provisional; Region: PRK04950 316407005752 putative RNA binding sites [nucleotide binding]; other site 316407005753 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 316407005754 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 316407005755 Paraquat-inducible protein A; Region: PqiA; pfam04403 316407005756 Paraquat-inducible protein A; Region: PqiA; pfam04403 316407005757 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 316407005758 mce related protein; Region: MCE; pfam02470 316407005759 mce related protein; Region: MCE; pfam02470 316407005760 mce related protein; Region: MCE; pfam02470 316407005761 mce related protein; Region: MCE; pfam02470 316407005762 mce related protein; Region: MCE; pfam02470 316407005763 mce related protein; Region: MCE; pfam02470 316407005764 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 316407005765 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 316407005766 S-adenosylmethionine binding site [chemical binding]; other site 316407005767 Uncharacterized conserved protein [Function unknown]; Region: COG3270 316407005768 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 316407005769 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 316407005770 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 316407005771 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 316407005772 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 316407005773 hypothetical protein; Provisional; Region: PRK10301 316407005774 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 316407005775 Predicted amidohydrolase [General function prediction only]; Region: COG0388 316407005776 exodeoxyribonuclease X; Provisional; Region: PRK07983 316407005777 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 316407005778 active site 316407005779 catalytic site [active] 316407005780 substrate binding site [chemical binding]; other site 316407005781 protease 2; Provisional; Region: PRK10115 316407005782 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 316407005783 Protein of unknown function (DUF533); Region: DUF533; pfam04391 316407005784 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 316407005785 putative metal binding site [ion binding]; other site 316407005786 hypothetical protein; Provisional; Region: PRK13680 316407005787 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 316407005788 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 316407005789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316407005790 ATP-grasp domain; Region: ATP-grasp; pfam02222 316407005791 Entner-Doudoroff aldolase; Region: eda; TIGR01182 316407005792 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 316407005793 active site 316407005794 intersubunit interface [polypeptide binding]; other site 316407005795 catalytic residue [active] 316407005796 phosphogluconate dehydratase; Validated; Region: PRK09054 316407005797 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 316407005798 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 316407005799 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 316407005800 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 316407005801 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316407005802 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 316407005803 putative active site [active] 316407005804 pyruvate kinase; Provisional; Region: PRK05826 316407005805 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 316407005806 domain interfaces; other site 316407005807 active site 316407005808 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316407005809 putative acyl-acceptor binding pocket; other site 316407005810 putative peptidase; Provisional; Region: PRK11649 316407005811 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 316407005812 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407005813 Peptidase family M23; Region: Peptidase_M23; pfam01551 316407005814 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 316407005815 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 316407005816 metal binding site [ion binding]; metal-binding site 316407005817 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 316407005818 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 316407005819 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 316407005820 ABC-ATPase subunit interface; other site 316407005821 dimer interface [polypeptide binding]; other site 316407005822 putative PBP binding regions; other site 316407005823 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 316407005824 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 316407005825 Walker A motif; other site 316407005826 ATP binding site [chemical binding]; other site 316407005827 Walker B motif; other site 316407005828 arginine finger; other site 316407005829 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 316407005830 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 316407005831 RuvA N terminal domain; Region: RuvA_N; pfam01330 316407005832 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 316407005833 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 316407005834 hypothetical protein; Provisional; Region: PRK11470 316407005835 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 316407005836 active site 316407005837 putative DNA-binding cleft [nucleotide binding]; other site 316407005838 dimer interface [polypeptide binding]; other site 316407005839 hypothetical protein; Validated; Region: PRK00110 316407005840 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 316407005841 nudix motif; other site 316407005842 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 316407005843 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 316407005844 dimer interface [polypeptide binding]; other site 316407005845 anticodon binding site; other site 316407005846 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 316407005847 homodimer interface [polypeptide binding]; other site 316407005848 motif 1; other site 316407005849 active site 316407005850 motif 2; other site 316407005851 GAD domain; Region: GAD; pfam02938 316407005852 motif 3; other site 316407005853 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 316407005854 catalytic triad [active] 316407005855 conserved cis-peptide bond; other site 316407005856 hypothetical protein; Provisional; Region: PRK10302 316407005857 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 316407005858 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 316407005859 S-adenosylmethionine binding site [chemical binding]; other site 316407005860 tRNA (mo5U34)-methyltransferase; Region: TIGR00452 316407005861 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 316407005862 S-adenosylmethionine binding site [chemical binding]; other site 316407005863 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316407005864 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 316407005865 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316407005866 molybdopterin cofactor binding site [chemical binding]; other site 316407005867 substrate binding site [chemical binding]; other site 316407005868 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 316407005869 molybdopterin cofactor binding site; other site 316407005870 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 316407005871 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 316407005872 copper homeostasis protein CutC; Provisional; Region: PRK11572 316407005873 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 316407005874 putative metal binding site [ion binding]; other site 316407005875 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 316407005876 arginyl-tRNA synthetase; Region: argS; TIGR00456 316407005877 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 316407005878 active site 316407005879 HIGH motif; other site 316407005880 KMSK motif region; other site 316407005881 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 316407005882 tRNA binding surface [nucleotide binding]; other site 316407005883 anticodon binding site; other site 316407005884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 316407005885 Flagellar protein FlhE; Region: FlhE; pfam06366 316407005886 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 316407005887 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 316407005888 chemotaxis regulator CheZ; Provisional; Region: PRK11166 316407005889 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 316407005890 active site 316407005891 phosphorylation site [posttranslational modification] 316407005892 intermolecular recognition site; other site 316407005893 dimerization interface [polypeptide binding]; other site 316407005894 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 316407005895 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 316407005896 active site 316407005897 phosphorylation site [posttranslational modification] 316407005898 intermolecular recognition site; other site 316407005899 dimerization interface [polypeptide binding]; other site 316407005900 CheB methylesterase; Region: CheB_methylest; pfam01339 316407005901 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 316407005902 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 316407005903 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 316407005904 S-adenosylmethionine binding site [chemical binding]; other site 316407005905 methyl-accepting protein IV; Provisional; Region: PRK09793 316407005906 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316407005907 dimer interface [polypeptide binding]; other site 316407005908 ligand binding site [chemical binding]; other site 316407005909 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 316407005910 dimerization interface [polypeptide binding]; other site 316407005911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316407005912 dimer interface [polypeptide binding]; other site 316407005913 putative CheW interface [polypeptide binding]; other site 316407005914 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 316407005915 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316407005916 dimer interface [polypeptide binding]; other site 316407005917 ligand binding site [chemical binding]; other site 316407005918 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 316407005919 dimerization interface [polypeptide binding]; other site 316407005920 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316407005921 dimer interface [polypeptide binding]; other site 316407005922 putative CheW interface [polypeptide binding]; other site 316407005923 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 316407005924 putative CheA interaction surface; other site 316407005925 chemotaxis protein CheA; Provisional; Region: PRK10547 316407005926 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 316407005927 putative binding surface; other site 316407005928 active site 316407005929 CheY binding; Region: CheY-binding; pfam09078 316407005930 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 316407005931 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 316407005932 ATP binding site [chemical binding]; other site 316407005933 Mg2+ binding site [ion binding]; other site 316407005934 G-X-G motif; other site 316407005935 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 316407005936 flagellar motor protein MotB; Validated; Region: motB; PRK09041 316407005937 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 316407005938 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316407005939 ligand binding site [chemical binding]; other site 316407005940 flagellar motor protein MotA; Validated; Region: PRK09110 316407005941 transcriptional activator FlhC; Provisional; Region: PRK12722 316407005942 transcriptional activator FlhD; Provisional; Region: PRK02909 316407005943 Transposase domain (DUF772); Region: DUF772; pfam05598 316407005944 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407005945 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407005946 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407005947 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 316407005948 Ligand Binding Site [chemical binding]; other site 316407005949 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 316407005950 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 316407005951 active site 316407005952 homotetramer interface [polypeptide binding]; other site 316407005953 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 316407005954 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 316407005955 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 316407005956 TM-ABC transporter signature motif; other site 316407005957 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 316407005958 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407005959 Walker A/P-loop; other site 316407005960 ATP binding site [chemical binding]; other site 316407005961 Q-loop/lid; other site 316407005962 ABC transporter signature motif; other site 316407005963 Walker B; other site 316407005964 D-loop; other site 316407005965 H-loop/switch region; other site 316407005966 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407005967 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 316407005968 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 316407005969 ligand binding site [chemical binding]; other site 316407005970 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 316407005971 Ferritin-like domain; Region: Ferritin; pfam00210 316407005972 ferroxidase diiron center [ion binding]; other site 316407005973 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 316407005974 YecR-like lipoprotein; Region: YecR; pfam13992 316407005975 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 316407005976 Ferritin-like domain; Region: Ferritin; pfam00210 316407005977 ferroxidase diiron center [ion binding]; other site 316407005978 probable metal-binding protein; Region: matur_matur; TIGR03853 316407005979 tyrosine transporter TyrP; Provisional; Region: PRK15132 316407005980 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407005981 hypothetical protein; Provisional; Region: PRK10396 316407005982 yecA family protein; Region: ygfB_yecA; TIGR02292 316407005983 SEC-C motif; Region: SEC-C; cl19389 316407005984 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 316407005985 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 316407005986 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 316407005987 GIY-YIG motif/motif A; other site 316407005988 active site 316407005989 catalytic site [active] 316407005990 putative DNA binding site [nucleotide binding]; other site 316407005991 metal binding site [ion binding]; metal-binding site 316407005992 UvrB/uvrC motif; Region: UVR; pfam02151 316407005993 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 316407005994 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 316407005995 response regulator; Provisional; Region: PRK09483 316407005996 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 316407005997 active site 316407005998 phosphorylation site [posttranslational modification] 316407005999 intermolecular recognition site; other site 316407006000 dimerization interface [polypeptide binding]; other site 316407006001 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 316407006002 DNA binding residues [nucleotide binding] 316407006003 dimerization interface [polypeptide binding]; other site 316407006004 hypothetical protein; Provisional; Region: PRK10613 316407006005 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 316407006006 Autoinducer binding domain; Region: Autoind_bind; pfam03472 316407006007 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 316407006008 DNA binding residues [nucleotide binding] 316407006009 dimerization interface [polypeptide binding]; other site 316407006010 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 316407006011 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316407006012 Walker A/P-loop; other site 316407006013 ATP binding site [chemical binding]; other site 316407006014 Q-loop/lid; other site 316407006015 ABC transporter signature motif; other site 316407006016 Walker B; other site 316407006017 D-loop; other site 316407006018 H-loop/switch region; other site 316407006019 amino acid ABC transporter permease; Provisional; Region: PRK15100 316407006020 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 316407006021 dimer interface [polypeptide binding]; other site 316407006022 conserved gate region; other site 316407006023 putative PBP binding loops; other site 316407006024 ABC-ATPase subunit interface; other site 316407006025 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 316407006026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407006027 catalytic residue [active] 316407006028 cystine transporter subunit; Provisional; Region: PRK11260 316407006029 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 316407006030 substrate binding pocket [chemical binding]; other site 316407006031 membrane-bound complex binding site; other site 316407006032 hinge residues; other site 316407006033 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 316407006034 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 316407006035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407006036 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316407006037 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 316407006038 DNA binding residues [nucleotide binding] 316407006039 flagellin; Validated; Region: PRK08026 316407006040 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 316407006041 Flagellin D3 domain; Region: Flagellin_D3; pfam08884 316407006042 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 316407006043 flagellar capping protein; Reviewed; Region: fliD; PRK08032 316407006044 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 316407006045 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 316407006046 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 316407006047 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 316407006048 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 316407006049 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 316407006050 active site 316407006051 Na/Ca binding site [ion binding]; other site 316407006052 catalytic site [active] 316407006053 lipoprotein; Provisional; Region: PRK10397 316407006054 putative inner membrane protein; Provisional; Region: PRK11099 316407006055 Predicted transporter component [General function prediction only]; Region: COG2391 316407006056 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 316407006057 CPxP motif; other site 316407006058 hypothetical protein; Provisional; Region: PRK09951 316407006059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316407006060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407006061 Coenzyme A binding pocket [chemical binding]; other site 316407006062 ECK1932:JW5912+JW1918:b4495; hypothetical protein 316407006063 'ECK1932:JW1918:b1933; hypothetical protein, N-ter fragment' 316407006064 'ECK1932:JW5912:b1934; hypothetical protein, C-ter fragment' 316407006065 ECK1934:JW5913:b1936; predicted defective phage integrase 316407006066 flagellar hook-basal body complex protein FliE; Region: fliE; TIGR00205 316407006067 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 316407006068 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 316407006069 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 316407006070 flagellar motor switch protein FliG; Region: fliG; TIGR00207 316407006071 FliG N-terminal domain; Region: FliG_N; pfam14842 316407006072 FliG middle domain; Region: FliG_M; pfam14841 316407006073 FliG C-terminal domain; Region: FliG_C; pfam01706 316407006074 flagellar assembly protein H; Validated; Region: fliH; PRK05687 316407006075 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 316407006076 Flagellar assembly protein FliH; Region: FliH; pfam02108 316407006077 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 316407006078 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 316407006079 Walker A motif/ATP binding site; other site 316407006080 Walker B motif; other site 316407006081 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 316407006082 flagellar hook-length control protein; Provisional; Region: PRK10118 316407006083 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 316407006084 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 316407006085 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 316407006086 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 316407006087 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 316407006088 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 316407006089 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 316407006090 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 316407006091 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 316407006092 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 316407006093 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 316407006094 DNA binding residues [nucleotide binding] 316407006095 dimerization interface [polypeptide binding]; other site 316407006096 hypothetical protein; Provisional; Region: PRK10708 316407006097 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 316407006098 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 316407006099 mannosyl-3-phosphoglycerate phosphatase family; Region: HAD-SF-IIB-MPGP; TIGR01486 316407006100 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 316407006101 active site 316407006102 motif I; other site 316407006103 motif II; other site 316407006104 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 316407006105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407006106 metal binding site [ion binding]; metal-binding site 316407006107 active site 316407006108 I-site; other site 316407006109 Uncharacterized small protein [Function unknown]; Region: COG5475 316407006110 hypothetical protein; Provisional; Region: PRK10062 316407006111 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 316407006112 EamA-like transporter family; Region: EamA; pfam00892 316407006113 EamA-like transporter family; Region: EamA; pfam00892 316407006114 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 316407006115 additional DNA contacts [nucleotide binding]; other site 316407006116 mismatch recognition site; other site 316407006117 active site 316407006118 zinc binding site [ion binding]; other site 316407006119 DNA intercalation site [nucleotide binding]; other site 316407006120 DNA cytosine methylase; Provisional; Region: PRK10458 316407006121 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 316407006122 cofactor binding site; other site 316407006123 DNA binding site [nucleotide binding] 316407006124 substrate interaction site [chemical binding]; other site 316407006125 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 316407006126 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407006127 Zn2+ binding site [ion binding]; other site 316407006128 Mg2+ binding site [ion binding]; other site 316407006129 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 316407006130 ECK1962:JW5319+JW1948+JW1949:b4496; hypothetical protein 316407006131 'ECK1962:JW5319:b1964; hypothetical protein, N-ter fragment' 316407006132 'ECK1962:JW1948:b1965; hypothetical protein, middle fragment' 316407006133 'ECK1962:JW1949:b1966; hypothetical protein, C-ter fragment' 316407006134 chaperone protein HchA; Provisional; Region: PRK04155 316407006135 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 316407006136 dimer interface [polypeptide binding]; other site 316407006137 metal binding site [ion binding]; metal-binding site 316407006138 potential oxyanion hole; other site 316407006139 potential catalytic triad [active] 316407006140 conserved cys residue [active] 316407006141 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 316407006142 HAMP domain; Region: HAMP; pfam00672 316407006143 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 316407006144 dimer interface [polypeptide binding]; other site 316407006145 phosphorylation site [posttranslational modification] 316407006146 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 316407006147 ATP binding site [chemical binding]; other site 316407006148 Mg2+ binding site [ion binding]; other site 316407006149 G-X-G motif; other site 316407006150 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 316407006151 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 316407006152 active site 316407006153 phosphorylation site [posttranslational modification] 316407006154 intermolecular recognition site; other site 316407006155 dimerization interface [polypeptide binding]; other site 316407006156 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 316407006157 DNA binding site [nucleotide binding] 316407006158 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 316407006159 active site 316407006160 homotetramer interface [polypeptide binding]; other site 316407006161 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 316407006162 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 316407006163 Moco binding site; other site 316407006164 metal coordination site [ion binding]; other site 316407006165 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 316407006166 zinc/cadmium-binding protein; Provisional; Region: PRK10306 316407006167 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 316407006168 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 316407006169 putative invasin; Provisional; Region: PRK10177 316407006170 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 316407006171 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316407006172 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006173 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006174 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316407006175 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 316407006176 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006177 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006178 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006179 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006180 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006181 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006182 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006183 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 316407006184 ECK1975:JW1961+JW5325:b4497; hypothetical protein 316407006185 'ECK1975:JW5325:b1979; hypothetical protein, C-ter fragment' 316407006186 'ECK1975:JW1961:b1980; hypothetical protein, N-ter fragment' 316407006187 shikimate transporter; Provisional; Region: PRK09952 316407006188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407006189 putative substrate translocation pore; other site 316407006190 AMP nucleosidase; Provisional; Region: PRK08292 316407006191 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 316407006192 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 316407006193 hypothetical protein; Provisional; Region: PRK12378 316407006194 MATE family multidrug exporter; Provisional; Region: PRK10189 316407006195 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 316407006196 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 316407006197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407006198 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 316407006199 putative substrate binding site [chemical binding]; other site 316407006200 dimerization interface [polypeptide binding]; other site 316407006201 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 316407006202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407006203 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 316407006204 putative dimerization interface [polypeptide binding]; other site 316407006205 L,D-transpeptidase; Provisional; Region: PRK10190 316407006206 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 316407006207 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 316407006208 putative dimer interface [polypeptide binding]; other site 316407006209 active site pocket [active] 316407006210 putative cataytic base [active] 316407006211 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 316407006212 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 316407006213 homotrimer interface [polypeptide binding]; other site 316407006214 Walker A motif; other site 316407006215 GTP binding site [chemical binding]; other site 316407006216 Walker B motif; other site 316407006217 Transposase domain (DUF772); Region: DUF772; pfam05598 316407006218 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407006219 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407006220 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407006221 CP4-44 prophage region; ECK1989:JW5326:b1995; predicted disrupted hemin or colicin receptor 316407006222 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407006223 HTH-like domain; Region: HTH_21; pfam13276 316407006224 Integrase core domain; Region: rve; pfam00665 316407006225 Integrase core domain; Region: rve_3; pfam13683 316407006226 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407006227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407006228 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 316407006229 CP4-44 prophage region; ECK1991:JW5327:b1999; predicted GTP-binding protein 316407006230 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 316407006231 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316407006232 hypothetical protein; Provisional; Region: PRK09945 316407006233 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 316407006234 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407006235 Autotransporter beta-domain; Region: Autotransporter; smart00869 316407006236 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 316407006237 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316407006238 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316407006239 MPN+ (JAMM) motif; other site 316407006240 Zinc-binding site [ion binding]; other site 316407006241 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316407006242 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316407006243 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316407006244 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 316407006245 hypothetical protein; Provisional; Region: PRK05423 316407006246 Predicted membrane protein [Function unknown]; Region: COG1289 316407006247 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316407006248 DNA gyrase inhibitor; Provisional; Region: PRK10016 316407006249 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 316407006250 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 316407006251 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 316407006252 exonuclease I; Provisional; Region: sbcB; PRK11779 316407006253 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 316407006254 active site 316407006255 catalytic site [active] 316407006256 substrate binding site [chemical binding]; other site 316407006257 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 316407006258 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 316407006259 CPxP motif; other site 316407006260 Predicted transporter component [General function prediction only]; Region: COG2391 316407006261 Sulphur transport; Region: Sulf_transp; cl19477 316407006262 Sulphur transport; Region: Sulf_transp; cl19477 316407006263 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 316407006264 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407006265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407006266 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316407006267 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 316407006268 dimerization interface [polypeptide binding]; other site 316407006269 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 316407006270 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 316407006271 putative NAD(P) binding site [chemical binding]; other site 316407006272 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 316407006273 antitoxin YefM; Provisional; Region: PRK11409 316407006274 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 316407006275 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 316407006276 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 316407006277 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 316407006278 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 316407006279 NAD binding site [chemical binding]; other site 316407006280 dimerization interface [polypeptide binding]; other site 316407006281 product binding site; other site 316407006282 substrate binding site [chemical binding]; other site 316407006283 zinc binding site [ion binding]; other site 316407006284 catalytic residues [active] 316407006285 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 316407006286 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 316407006287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407006288 homodimer interface [polypeptide binding]; other site 316407006289 catalytic residue [active] 316407006290 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 316407006291 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 316407006292 active site 316407006293 motif I; other site 316407006294 motif II; other site 316407006295 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 316407006296 putative active site pocket [active] 316407006297 4-fold oligomerization interface [polypeptide binding]; other site 316407006298 metal binding residues [ion binding]; metal-binding site 316407006299 3-fold/trimer interface [polypeptide binding]; other site 316407006300 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 316407006301 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 316407006302 putative active site [active] 316407006303 oxyanion strand; other site 316407006304 catalytic triad [active] 316407006305 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 316407006306 catalytic residues [active] 316407006307 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 316407006308 substrate binding site [chemical binding]; other site 316407006309 glutamase interaction surface [polypeptide binding]; other site 316407006310 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 316407006311 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 316407006312 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 316407006313 metal binding site [ion binding]; metal-binding site 316407006314 chain length determinant protein WzzB; Provisional; Region: PRK15471 316407006315 Chain length determinant protein; Region: Wzz; pfam02706 316407006316 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407006317 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 316407006318 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 316407006319 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316407006320 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316407006321 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 316407006322 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 316407006323 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 316407006324 ECK2025:JW2016+JW2012:b4571; lipopolysaccharide biosynthesis protein 316407006325 'ECK2025:JW2012:b4540; lipopolysaccharide biosynthesis protein, C-ter fragment' 316407006326 Transposase domain (DUF772); Region: DUF772; pfam05598 316407006327 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407006328 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407006329 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407006330 'ECK2025:JW2016:b2031; lipopolysaccharide biosynthesis protein, N-ter fragment' 316407006331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316407006332 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 316407006333 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 316407006334 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 316407006335 trimer interface [polypeptide binding]; other site 316407006336 active site 316407006337 substrate binding site [chemical binding]; other site 316407006338 CoA binding site [chemical binding]; other site 316407006339 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 316407006340 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 316407006341 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316407006342 UDP-galactopyranose mutase; Region: GLF; pfam03275 316407006343 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316407006344 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 316407006345 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 316407006346 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316407006347 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316407006348 substrate binding site; other site 316407006349 tetramer interface; other site 316407006350 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 316407006351 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 316407006352 NADP binding site [chemical binding]; other site 316407006353 active site 316407006354 putative substrate binding site [chemical binding]; other site 316407006355 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 316407006356 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316407006357 NAD binding site [chemical binding]; other site 316407006358 substrate binding site [chemical binding]; other site 316407006359 homodimer interface [polypeptide binding]; other site 316407006360 active site 316407006361 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 316407006362 active site 316407006363 tetramer interface; other site 316407006364 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 316407006365 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 316407006366 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 316407006367 putative ADP-binding pocket [chemical binding]; other site 316407006368 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 316407006369 colanic acid exporter; Provisional; Region: PRK10459 316407006370 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 316407006371 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 316407006372 CoA-binding domain; Region: CoA_binding_3; pfam13727 316407006373 Bacterial sugar transferase; Region: Bac_transf; pfam02397 316407006374 phosphomannomutase CpsG; Provisional; Region: PRK15414 316407006375 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 316407006376 active site 316407006377 substrate binding site [chemical binding]; other site 316407006378 metal binding site [ion binding]; metal-binding site 316407006379 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 316407006380 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 316407006381 Substrate binding site; other site 316407006382 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 316407006383 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 316407006384 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 316407006385 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 316407006386 active site 316407006387 GDP-Mannose binding site [chemical binding]; other site 316407006388 dimer interface [polypeptide binding]; other site 316407006389 modified nudix motif 316407006390 metal binding site [ion binding]; metal-binding site 316407006391 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 316407006392 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 316407006393 NADP binding site [chemical binding]; other site 316407006394 active site 316407006395 putative substrate binding site [chemical binding]; other site 316407006396 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 316407006397 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 316407006398 NADP-binding site; other site 316407006399 homotetramer interface [polypeptide binding]; other site 316407006400 substrate binding site [chemical binding]; other site 316407006401 homodimer interface [polypeptide binding]; other site 316407006402 active site 316407006403 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 316407006404 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 316407006405 putative trimer interface [polypeptide binding]; other site 316407006406 putative active site [active] 316407006407 putative substrate binding site [chemical binding]; other site 316407006408 putative CoA binding site [chemical binding]; other site 316407006409 putative glycosyl transferase; Provisional; Region: PRK10063 316407006410 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 316407006411 metal-binding site 316407006412 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 316407006413 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 316407006414 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 316407006415 putative acyl transferase; Provisional; Region: PRK10191 316407006416 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 316407006417 trimer interface [polypeptide binding]; other site 316407006418 active site 316407006419 substrate binding site [chemical binding]; other site 316407006420 CoA binding site [chemical binding]; other site 316407006421 putative glycosyl transferase; Provisional; Region: PRK10018 316407006422 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 316407006423 active site 316407006424 tyrosine kinase; Provisional; Region: PRK11519 316407006425 Chain length determinant protein; Region: Wzz; pfam02706 316407006426 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407006427 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 316407006428 Low molecular weight phosphatase family; Region: LMWPc; cd00115 316407006429 active site 316407006430 polysaccharide export protein Wza; Provisional; Region: PRK15078 316407006431 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 316407006432 SLBB domain; Region: SLBB; pfam10531 316407006433 SLBB domain; Region: SLBB; pfam10531 316407006434 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316407006435 FOG: CBS domain [General function prediction only]; Region: COG0517 316407006436 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 316407006437 Transporter associated domain; Region: CorC_HlyC; smart01091 316407006438 putative assembly protein; Provisional; Region: PRK10833 316407006439 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407006440 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407006441 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316407006442 trimer interface [polypeptide binding]; other site 316407006443 active site 316407006444 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 316407006445 ATP-binding site [chemical binding]; other site 316407006446 Sugar specificity; other site 316407006447 Pyrimidine base specificity; other site 316407006448 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 316407006449 putative diguanylate cyclase; Provisional; Region: PRK09776 316407006450 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 316407006451 putative active site [active] 316407006452 heme pocket [chemical binding]; other site 316407006453 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 316407006454 putative active site [active] 316407006455 heme pocket [chemical binding]; other site 316407006456 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 316407006457 putative active site [active] 316407006458 heme pocket [chemical binding]; other site 316407006459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407006460 metal binding site [ion binding]; metal-binding site 316407006461 active site 316407006462 I-site; other site 316407006463 Putative diguanylate phosphodiesterase; Region: EAL; smart00052 316407006464 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 316407006465 AlkA N-terminal domain; Region: AlkA_N; smart01009 316407006466 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316407006467 minor groove reading motif; other site 316407006468 helix-hairpin-helix signature motif; other site 316407006469 substrate binding pocket [chemical binding]; other site 316407006470 active site 316407006471 putative chaperone; Provisional; Region: PRK11678 316407006472 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 316407006473 nucleotide binding site [chemical binding]; other site 316407006474 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316407006475 SBD interface [polypeptide binding]; other site 316407006476 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 316407006477 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 316407006478 substrate binding site [chemical binding]; other site 316407006479 activation loop (A-loop); other site 316407006480 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 316407006481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 316407006482 Protein phosphatase 2C; Region: PP2C_2; pfam13672 316407006483 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 316407006484 metal ion-dependent adhesion site (MIDAS); other site 316407006485 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 316407006486 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407006487 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407006488 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 316407006489 MMPL family; Region: MMPL; cl14618 316407006490 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 316407006491 MMPL family; Region: MMPL; cl14618 316407006492 MMPL family; Region: MMPL; cl14618 316407006493 putative transporter; Provisional; Region: PRK10504 316407006494 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407006495 putative substrate translocation pore; other site 316407006496 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 316407006497 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 316407006498 dimerization interface [polypeptide binding]; other site 316407006499 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 316407006500 dimer interface [polypeptide binding]; other site 316407006501 phosphorylation site [posttranslational modification] 316407006502 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 316407006503 ATP binding site [chemical binding]; other site 316407006504 Mg2+ binding site [ion binding]; other site 316407006505 G-X-G motif; other site 316407006506 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 316407006507 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 316407006508 active site 316407006509 phosphorylation site [posttranslational modification] 316407006510 intermolecular recognition site; other site 316407006511 dimerization interface [polypeptide binding]; other site 316407006512 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 316407006513 DNA binding site [nucleotide binding] 316407006514 Uncharacterized conserved protein [Function unknown]; Region: COG3422 316407006515 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 316407006516 putative protease; Provisional; Region: PRK15452 316407006517 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316407006518 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 316407006519 ECK2080:JW5886:b2083; hypothetical protein fragment 316407006520 lipid kinase; Reviewed; Region: PRK13054 316407006521 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 316407006522 DNA-binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 316407006523 'DNA-binding transcriptional regulator, N-ter fragment; ECK2083:JW5340:b2087' 316407006524 Transposase; Region: HTH_Tnp_1; cl17663 316407006525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407006526 putative transposase OrfB; Reviewed; Region: PHA02517 316407006527 HTH-like domain; Region: HTH_21; pfam13276 316407006528 Integrase core domain; Region: rve; pfam00665 316407006529 Integrase core domain; Region: rve_2; pfam13333 316407006530 'DNA-binding transcriptional regulator, C-ter fragment; ECK2083:JW2074:b2090' 316407006531 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 316407006532 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 316407006533 putative NAD(P) binding site [chemical binding]; other site 316407006534 catalytic Zn binding site [ion binding]; other site 316407006535 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 316407006536 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 316407006537 active site 316407006538 P-loop; other site 316407006539 phosphorylation site [posttranslational modification] 316407006540 'ECK2087:JW2078+JW2081:b2094; IS is inserted, intact gatA is found in strain MG1655' 316407006541 Transposase domain (DUF772); Region: DUF772; pfam05598 316407006542 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407006543 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407006544 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407006545 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 316407006546 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 316407006547 intersubunit interface [polypeptide binding]; other site 316407006548 active site 316407006549 zinc binding site [ion binding]; other site 316407006550 Na+ binding site [ion binding]; other site 316407006551 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 316407006552 putative active site; other site 316407006553 catalytic residue [active] 316407006554 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 316407006555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407006556 putative substrate translocation pore; other site 316407006557 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 316407006558 YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YegV_kinase_like; cd01944 316407006559 substrate binding site [chemical binding]; other site 316407006560 ATP binding site [chemical binding]; other site 316407006561 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316407006562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407006563 DNA-binding site [nucleotide binding]; DNA binding site 316407006564 UTRA domain; Region: UTRA; pfam07702 316407006565 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 316407006566 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 316407006567 active site 316407006568 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 316407006569 dimer interface [polypeptide binding]; other site 316407006570 substrate binding site [chemical binding]; other site 316407006571 ATP binding site [chemical binding]; other site 316407006572 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 316407006573 substrate binding site [chemical binding]; other site 316407006574 multimerization interface [polypeptide binding]; other site 316407006575 ATP binding site [chemical binding]; other site 316407006576 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 316407006577 putative metal binding site [ion binding]; other site 316407006578 putative homodimer interface [polypeptide binding]; other site 316407006579 putative homotetramer interface [polypeptide binding]; other site 316407006580 putative homodimer-homodimer interface [polypeptide binding]; other site 316407006581 putative allosteric switch controlling residues; other site 316407006582 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 316407006583 Predicted integral membrane protein [Function unknown]; Region: COG5455 316407006584 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 316407006585 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 316407006586 PapC N-terminal domain; Region: PapC_N; pfam13954 316407006587 Outer membrane usher protein; Region: Usher; pfam00577 316407006588 PapC C-terminal domain; Region: PapC_C; pfam13953 316407006589 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 316407006590 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407006591 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407006592 Fimbrial protein; Region: Fimbrial; cl01416 316407006593 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 316407006594 antiporter inner membrane protein; Provisional; Region: PRK11670 316407006595 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 316407006596 Walker A motif; other site 316407006597 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 316407006598 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 316407006599 active site 316407006600 HIGH motif; other site 316407006601 KMSKS motif; other site 316407006602 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 316407006603 tRNA binding surface [nucleotide binding]; other site 316407006604 anticodon binding site; other site 316407006605 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 316407006606 dimer interface [polypeptide binding]; other site 316407006607 putative tRNA-binding site [nucleotide binding]; other site 316407006608 DNA-binding transcriptional regulator; ECK2108:JW2102+JW5915+JW5916:b4499 316407006609 'DNA-binding transcriptional regulator, N-ter fragment; ECK2108:JW2102:b2115' 316407006610 'DNA-binding transcriptional regulator, middle fragment; ECK2108:JW5915:b2116' 316407006611 'DNA-binding transcriptional regulator, C-ter fragment; ECK2108:JW5916:b2117' 316407006612 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 316407006613 MoxR-like ATPases [General function prediction only]; Region: COG0714 316407006614 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 316407006615 Walker A motif; other site 316407006616 ATP binding site [chemical binding]; other site 316407006617 Walker B motif; other site 316407006618 arginine finger; other site 316407006619 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 316407006620 metal ion-dependent adhesion site (MIDAS); other site 316407006621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 316407006622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 316407006623 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 316407006624 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 316407006625 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 316407006626 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 316407006627 active site 316407006628 phosphorylation site [posttranslational modification] 316407006629 intermolecular recognition site; other site 316407006630 dimerization interface [polypeptide binding]; other site 316407006631 LytTr DNA-binding domain; Region: LytTR; pfam04397 316407006632 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 316407006633 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 316407006634 GAF domain; Region: GAF; pfam01590 316407006635 Histidine kinase; Region: His_kinase; pfam06580 316407006636 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 316407006637 ATP binding site [chemical binding]; other site 316407006638 Mg2+ binding site [ion binding]; other site 316407006639 G-X-G motif; other site 316407006640 transcriptional regulator MirA; Provisional; Region: PRK15043 316407006641 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 316407006642 DNA binding residues [nucleotide binding] 316407006643 hypothetical protein; Provisional; Region: PRK13681 316407006644 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316407006645 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 316407006646 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 316407006647 dimer interface [polypeptide binding]; other site 316407006648 conserved gate region; other site 316407006649 putative PBP binding loops; other site 316407006650 ABC-ATPase subunit interface; other site 316407006651 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 316407006652 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 316407006653 Walker A/P-loop; other site 316407006654 ATP binding site [chemical binding]; other site 316407006655 Q-loop/lid; other site 316407006656 ABC transporter signature motif; other site 316407006657 Walker B; other site 316407006658 D-loop; other site 316407006659 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 316407006660 H-loop/switch region; other site 316407006661 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 316407006662 dimer interface [polypeptide binding]; other site 316407006663 conserved gate region; other site 316407006664 putative PBP binding loops; other site 316407006665 ABC-ATPase subunit interface; other site 316407006666 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 316407006667 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 316407006668 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 316407006669 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 316407006670 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 316407006671 D-lactate dehydrogenase; Provisional; Region: PRK11183 316407006672 FAD binding domain; Region: FAD_binding_4; cl19922 316407006673 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 316407006674 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 316407006675 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 316407006676 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 316407006677 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316407006678 oxidoreductase; Provisional; Region: PRK12743 316407006679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316407006680 NAD(P) binding site [chemical binding]; other site 316407006681 active site 316407006682 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 316407006683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 316407006684 Outer membrane efflux protein; Region: OEP; pfam02321 316407006685 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 316407006686 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 316407006687 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 316407006688 FMN binding site [chemical binding]; other site 316407006689 active site 316407006690 catalytic residues [active] 316407006691 substrate binding site [chemical binding]; other site 316407006692 hypothetical protein; Provisional; Region: PRK01821 316407006693 hypothetical protein; Provisional; Region: PRK10711 316407006694 cytidine deaminase; Provisional; Region: PRK09027 316407006695 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 316407006696 active site 316407006697 catalytic motif [active] 316407006698 Zn binding site [ion binding]; other site 316407006699 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 316407006700 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 316407006701 active site 316407006702 catalytic motif [active] 316407006703 Zn binding site [ion binding]; other site 316407006704 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 316407006705 putative active site [active] 316407006706 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 316407006707 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 316407006708 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 316407006709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316407006710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407006711 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 316407006712 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 316407006713 homodimer interface [polypeptide binding]; other site 316407006714 active site 316407006715 FMN binding site [chemical binding]; other site 316407006716 substrate binding site [chemical binding]; other site 316407006717 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; cl19102 316407006718 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 316407006719 TM-ABC transporter signature motif; other site 316407006720 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407006721 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 316407006722 Walker A/P-loop; other site 316407006723 ATP binding site [chemical binding]; other site 316407006724 Q-loop/lid; other site 316407006725 ABC transporter signature motif; other site 316407006726 Walker B; other site 316407006727 D-loop; other site 316407006728 H-loop/switch region; other site 316407006729 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407006730 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 316407006731 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 316407006732 ligand binding site [chemical binding]; other site 316407006733 calcium binding site [ion binding]; other site 316407006734 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 316407006735 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407006736 DNA binding site [nucleotide binding] 316407006737 domain linker motif; other site 316407006738 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 316407006739 dimerization interface (closed form) [polypeptide binding]; other site 316407006740 ligand binding site [chemical binding]; other site 316407006741 Predicted membrane protein [Function unknown]; Region: COG2311 316407006742 hypothetical protein; Provisional; Region: PRK10835 316407006743 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 316407006744 homodecamer interface [polypeptide binding]; other site 316407006745 active site 316407006746 putative catalytic site residues [active] 316407006747 zinc binding site [ion binding]; other site 316407006748 GTP-CH-I/GFRP interaction surface; other site 316407006749 Predicted esterase [General function prediction only]; Region: COG0627 316407006750 S-formylglutathione hydrolase; Region: PLN02442 316407006751 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 316407006752 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 316407006753 N-terminal plug; other site 316407006754 ligand-binding site [chemical binding]; other site 316407006755 lysine transporter; Provisional; Region: PRK10836 316407006756 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407006757 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 316407006758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407006759 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 316407006760 putative dimerization interface [polypeptide binding]; other site 316407006761 conserved hypothetical integral membrane protein; Region: TIGR00698 316407006762 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 316407006763 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 316407006764 AP (apurinic/apyrimidinic) site pocket; other site 316407006765 DNA interaction; other site 316407006766 Metal-binding active site; metal-binding site 316407006767 putative kinase; Provisional; Region: PRK09954 316407006768 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 316407006769 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 316407006770 substrate binding site [chemical binding]; other site 316407006771 ATP binding site [chemical binding]; other site 316407006772 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316407006773 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316407006774 Nucleoside recognition; Region: Gate; pfam07670 316407006775 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316407006776 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 316407006777 active site 316407006778 tetramer interface [polypeptide binding]; other site 316407006779 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 316407006780 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 316407006781 ligand binding site [chemical binding]; other site 316407006782 flexible hinge region; other site 316407006783 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 316407006784 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316407006785 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316407006786 Nucleoside recognition; Region: Gate; pfam07670 316407006787 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316407006788 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 316407006789 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 316407006790 substrate binding site [chemical binding]; other site 316407006791 ATP binding site [chemical binding]; other site 316407006792 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 316407006793 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 316407006794 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 316407006795 active site 316407006796 P-loop; other site 316407006797 phosphorylation site [posttranslational modification] 316407006798 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 316407006799 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 316407006800 putative substrate binding site [chemical binding]; other site 316407006801 putative ATP binding site [chemical binding]; other site 316407006802 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 316407006803 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 316407006804 active site 316407006805 phosphorylation site [posttranslational modification] 316407006806 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 316407006807 dimerization domain swap beta strand [polypeptide binding]; other site 316407006808 regulatory protein interface [polypeptide binding]; other site 316407006809 active site 316407006810 regulatory phosphorylation site [posttranslational modification]; other site 316407006811 sugar efflux transporter B; Provisional; Region: PRK15011 316407006812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407006813 putative substrate translocation pore; other site 316407006814 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 316407006815 elongation factor P; Provisional; Region: PRK04542 316407006816 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316407006817 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 316407006818 RNA binding site [nucleotide binding]; other site 316407006819 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 316407006820 RNA binding site [nucleotide binding]; other site 316407006821 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 316407006822 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316407006823 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316407006824 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 316407006825 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 316407006826 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 316407006827 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 316407006828 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 316407006829 active site 316407006830 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 316407006831 NlpC/P60 family; Region: NLPC_P60; pfam00877 316407006832 phage resistance protein; Provisional; Region: PRK10551 316407006833 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316407006834 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 316407006835 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 316407006836 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 316407006837 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 316407006838 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 316407006839 dimer interface [polypeptide binding]; other site 316407006840 conserved gate region; other site 316407006841 putative PBP binding loops; other site 316407006842 ABC-ATPase subunit interface; other site 316407006843 microcin C ABC transporter permease; Provisional; Region: PRK15021 316407006844 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 316407006845 dimer interface [polypeptide binding]; other site 316407006846 conserved gate region; other site 316407006847 putative PBP binding loops; other site 316407006848 ABC-ATPase subunit interface; other site 316407006849 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 316407006850 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407006851 Walker A/P-loop; other site 316407006852 ATP binding site [chemical binding]; other site 316407006853 Q-loop/lid; other site 316407006854 ABC transporter signature motif; other site 316407006855 Walker B; other site 316407006856 D-loop; other site 316407006857 H-loop/switch region; other site 316407006858 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407006859 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407006860 Walker A/P-loop; other site 316407006861 ATP binding site [chemical binding]; other site 316407006862 Q-loop/lid; other site 316407006863 ABC transporter signature motif; other site 316407006864 Walker B; other site 316407006865 D-loop; other site 316407006866 H-loop/switch region; other site 316407006867 hypothetical protein; Provisional; Region: PRK11835 316407006868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407006869 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 316407006870 putative substrate translocation pore; other site 316407006871 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 316407006872 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 316407006873 RNA binding surface [nucleotide binding]; other site 316407006874 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 316407006875 active site 316407006876 uracil binding [chemical binding]; other site 316407006877 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 316407006878 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 316407006879 ATP binding site [chemical binding]; other site 316407006880 putative Mg++ binding site [ion binding]; other site 316407006881 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 316407006882 nucleotide binding region [chemical binding]; other site 316407006883 ATP-binding site [chemical binding]; other site 316407006884 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 316407006885 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 316407006886 5S rRNA interface [nucleotide binding]; other site 316407006887 CTC domain interface [polypeptide binding]; other site 316407006888 L16 interface [polypeptide binding]; other site 316407006889 nucleoid-associated protein NdpA; Validated; Region: PRK00378 316407006890 hypothetical protein; Provisional; Region: PRK13689 316407006891 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 316407006892 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 316407006893 Sulfatase; Region: Sulfatase; pfam00884 316407006894 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316407006895 hypothetical protein; Provisional; Region: PRK09945 316407006896 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 316407006897 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407006898 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316407006899 Transposase domain (DUF772); Region: DUF772; pfam05598 316407006900 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407006901 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407006902 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407006903 transcriptional regulator NarP; Provisional; Region: PRK10403 316407006904 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 316407006905 active site 316407006906 phosphorylation site [posttranslational modification] 316407006907 intermolecular recognition site; other site 316407006908 dimerization interface [polypeptide binding]; other site 316407006909 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 316407006910 DNA binding residues [nucleotide binding] 316407006911 dimerization interface [polypeptide binding]; other site 316407006912 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 316407006913 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 316407006914 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 316407006915 binding surface 316407006916 TPR motif; other site 316407006917 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 316407006918 catalytic residues [active] 316407006919 central insert; other site 316407006920 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 316407006921 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13150 316407006922 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 316407006923 heme exporter protein CcmC; Region: ccmC; TIGR01191 316407006924 heme exporter protein CcmB; Region: ccmB; TIGR01190 316407006925 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 316407006926 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 316407006927 Walker A/P-loop; other site 316407006928 ATP binding site [chemical binding]; other site 316407006929 Q-loop/lid; other site 316407006930 ABC transporter signature motif; other site 316407006931 Walker B; other site 316407006932 D-loop; other site 316407006933 H-loop/switch region; other site 316407006934 cytochrome c-type protein NapC; Provisional; Region: PRK10617 316407006935 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 316407006936 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 316407006937 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 316407006938 4Fe-4S binding domain; Region: Fer4_5; pfam12801 316407006939 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; cl19102 316407006940 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 316407006941 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; cl19102 316407006942 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; cl19102 316407006943 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; cl19102 316407006944 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 316407006945 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 316407006946 [4Fe-4S] binding site [ion binding]; other site 316407006947 molybdopterin cofactor binding site; other site 316407006948 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 316407006949 molybdopterin cofactor binding site; other site 316407006950 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 316407006951 ferredoxin-type protein; Provisional; Region: PRK10194 316407006952 ferredoxin-type protein NapF; Region: napF; TIGR00402 316407006953 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 316407006954 secondary substrate binding site; other site 316407006955 primary substrate binding site; other site 316407006956 inhibition loop; other site 316407006957 dimerization interface [polypeptide binding]; other site 316407006958 malate:quinone oxidoreductase; Validated; Region: PRK05257 316407006959 Predicted dehydrogenase [General function prediction only]; Region: COG0579 316407006960 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 316407006961 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 316407006962 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 316407006963 Walker A/P-loop; other site 316407006964 ATP binding site [chemical binding]; other site 316407006965 Q-loop/lid; other site 316407006966 ABC transporter signature motif; other site 316407006967 Walker B; other site 316407006968 D-loop; other site 316407006969 H-loop/switch region; other site 316407006970 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 316407006971 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 316407006972 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 316407006973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407006974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407006975 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 316407006976 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 316407006977 DNA binding site [nucleotide binding] 316407006978 active site 316407006979 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 316407006980 outer membrane porin protein C; Provisional; Region: PRK10554 316407006981 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 316407006982 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 316407006983 ATP binding site [chemical binding]; other site 316407006984 Mg2+ binding site [ion binding]; other site 316407006985 G-X-G motif; other site 316407006986 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 316407006987 putative binding surface; other site 316407006988 active site 316407006989 transcriptional regulator RcsB; Provisional; Region: PRK10840 316407006990 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 316407006991 active site 316407006992 phosphorylation site [posttranslational modification] 316407006993 intermolecular recognition site; other site 316407006994 dimerization interface [polypeptide binding]; other site 316407006995 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 316407006996 DNA binding residues [nucleotide binding] 316407006997 dimerization interface [polypeptide binding]; other site 316407006998 'ECK2211:JW5920+JW5917:b2218; IS is inserted, intact rcsC is found in strain MG1655' 316407006999 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407007000 HTH-like domain; Region: HTH_21; pfam13276 316407007001 Integrase core domain; Region: rve; pfam00665 316407007002 Integrase core domain; Region: rve_3; pfam13683 316407007003 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407007004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407007005 sensory histidine kinase AtoS; Provisional; Region: PRK11360 316407007006 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 316407007007 putative active site [active] 316407007008 heme pocket [chemical binding]; other site 316407007009 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 316407007010 dimer interface [polypeptide binding]; other site 316407007011 phosphorylation site [posttranslational modification] 316407007012 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 316407007013 ATP binding site [chemical binding]; other site 316407007014 Mg2+ binding site [ion binding]; other site 316407007015 G-X-G motif; other site 316407007016 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 316407007017 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 316407007018 active site 316407007019 phosphorylation site [posttranslational modification] 316407007020 intermolecular recognition site; other site 316407007021 dimerization interface [polypeptide binding]; other site 316407007022 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 316407007023 Walker A motif; other site 316407007024 ATP binding site [chemical binding]; other site 316407007025 Walker B motif; other site 316407007026 arginine finger; other site 316407007027 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407007028 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 316407007029 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 316407007030 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 316407007031 putative acyltransferase; Provisional; Region: PRK05790 316407007032 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 316407007033 dimer interface [polypeptide binding]; other site 316407007034 active site 316407007035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 316407007036 Predicted secreted protein [Function unknown]; Region: COG5445 316407007037 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 316407007038 Predicted secreted protein [Function unknown]; Region: COG5445 316407007039 Stage II sporulation protein; Region: SpoIID; pfam08486 316407007040 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 316407007041 ECK2220:JW2222+JW2221:b4500; hypothetical protein 316407007042 'ECK2220:JW2221:b2227; hypothetical protein, C-ter fragment' 316407007043 'ECK2220:JW2222:b2228; hypothetical protein, N-ter fragment' 316407007044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 316407007045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 316407007046 DNA gyrase subunit A; Validated; Region: PRK05560 316407007047 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 316407007048 CAP-like domain; other site 316407007049 active site 316407007050 primary dimer interface [polypeptide binding]; other site 316407007051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407007057 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 316407007058 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 316407007059 S-adenosylmethionine binding site [chemical binding]; other site 316407007060 adhesin; Provisional; Region: PRK09752 316407007061 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 316407007062 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316407007063 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 316407007064 ATP cone domain; Region: ATP-cone; pfam03477 316407007065 Class I ribonucleotide reductase; Region: RNR_I; cd01679 316407007066 active site 316407007067 dimer interface [polypeptide binding]; other site 316407007068 catalytic residues [active] 316407007069 effector binding site; other site 316407007070 R2 peptide binding site; other site 316407007071 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 316407007072 dimer interface [polypeptide binding]; other site 316407007073 putative radical transfer pathway; other site 316407007074 diiron center [ion binding]; other site 316407007075 tyrosyl radical; other site 316407007076 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 316407007077 catalytic loop [active] 316407007078 iron binding site [ion binding]; other site 316407007079 hypothetical protein; Provisional; Region: PRK09902 316407007080 hypothetical protein; Provisional; Region: PRK09729 316407007081 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 316407007082 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 316407007083 active site 316407007084 catalytic site [active] 316407007085 metal binding site [ion binding]; metal-binding site 316407007086 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 316407007087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407007088 putative substrate translocation pore; other site 316407007089 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 316407007090 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407007091 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 316407007092 FAD binding domain; Region: FAD_binding_2; pfam00890 316407007093 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 316407007094 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407007095 Cysteine-rich domain; Region: CCG; pfam02754 316407007096 Cysteine-rich domain; Region: CCG; pfam02754 316407007097 hypothetical protein; Provisional; Region: PRK09956 316407007098 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316407007099 ECK2237:JW5964:b4543; hypothetical protein 316407007100 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 316407007101 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 316407007102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407007103 putative substrate translocation pore; other site 316407007104 L-rhamnonate dehydratase; Provisional; Region: PRK15440 316407007105 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 316407007106 putative active site pocket [active] 316407007107 putative metal binding site [ion binding]; other site 316407007108 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407007109 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316407007110 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407007111 hypothetical protein; Provisional; Region: PRK03673 316407007112 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 316407007113 putative MPT binding site; other site 316407007114 Competence-damaged protein; Region: CinA; cl00666 316407007115 YfaZ precursor; Region: YfaZ; pfam07437 316407007116 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 316407007117 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 316407007118 catalytic core [active] 316407007119 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 316407007120 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 316407007121 inhibitor-cofactor binding pocket; inhibition site 316407007122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407007123 catalytic residue [active] 316407007124 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316407007125 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316407007126 Ligand binding site; other site 316407007127 Putative Catalytic site; other site 316407007128 DXD motif; other site 316407007129 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 316407007130 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 316407007131 substrate binding site [chemical binding]; other site 316407007132 cosubstrate binding site; other site 316407007133 catalytic site [active] 316407007134 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 316407007135 active site 316407007136 hexamer interface [polypeptide binding]; other site 316407007137 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 316407007138 NAD binding site [chemical binding]; other site 316407007139 substrate binding site [chemical binding]; other site 316407007140 active site 316407007141 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 316407007142 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 316407007143 putative active site [active] 316407007144 putative catalytic site [active] 316407007145 putative Zn binding site [ion binding]; other site 316407007146 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 316407007147 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 316407007148 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 316407007149 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 316407007150 signal transduction protein PmrD; Provisional; Region: PRK15450 316407007151 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 316407007152 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 316407007153 acyl-activating enzyme (AAE) consensus motif; other site 316407007154 putative AMP binding site [chemical binding]; other site 316407007155 putative active site [active] 316407007156 putative CoA binding site [chemical binding]; other site 316407007157 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 316407007158 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 316407007159 active site 316407007160 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 316407007161 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 316407007162 substrate binding site [chemical binding]; other site 316407007163 oxyanion hole (OAH) forming residues; other site 316407007164 trimer interface [polypeptide binding]; other site 316407007165 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 316407007166 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 316407007167 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 316407007168 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 316407007169 dimer interface [polypeptide binding]; other site 316407007170 tetramer interface [polypeptide binding]; other site 316407007171 PYR/PP interface [polypeptide binding]; other site 316407007172 TPP binding site [chemical binding]; other site 316407007173 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 316407007174 TPP-binding site; other site 316407007175 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 316407007176 isochorismate synthases; Region: isochor_syn; TIGR00543 316407007177 hypothetical protein; Provisional; Region: PRK10404 316407007178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407007179 Coenzyme A binding pocket [chemical binding]; other site 316407007180 ribonuclease BN; Region: true_RNase_BN; TIGR02649 316407007181 deubiquitinase; Provisional; Region: PRK11836 316407007182 von Willebrand factor; Region: vWF_A; pfam12450 316407007183 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 316407007184 VWA subgroup: 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_subgroup; cd01465 316407007185 metal ion-dependent adhesion site (MIDAS); other site 316407007186 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 316407007187 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 316407007188 M28 Zn-Peptidases; Region: M28_like_1; cd05640 316407007189 metal binding site [ion binding]; metal-binding site 316407007190 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 316407007191 Tetratricopeptide repeat; Region: TPR_14; pfam13428 316407007192 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316407007193 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00200 316407007194 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007195 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 316407007196 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007197 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 316407007198 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 316407007199 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007200 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 316407007201 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 316407007202 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 316407007203 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; cl19102 316407007204 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 316407007205 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 316407007206 NADH dehydrogenase subunit G; Validated; Region: PRK08166 316407007207 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 316407007208 catalytic loop [active] 316407007209 iron binding site [ion binding]; other site 316407007210 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 316407007211 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 316407007212 [4Fe-4S] binding site [ion binding]; other site 316407007213 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 316407007214 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 316407007215 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 316407007216 SLBB domain; Region: SLBB; pfam10531 316407007217 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 316407007218 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 316407007219 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 316407007220 putative dimer interface [polypeptide binding]; other site 316407007221 [2Fe-2S] cluster binding site [ion binding]; other site 316407007222 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 316407007223 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 316407007224 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 316407007225 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 316407007226 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 316407007227 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 316407007228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407007229 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 316407007230 putative dimerization interface [polypeptide binding]; other site 316407007231 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407007232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407007233 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407007234 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407007235 aminotransferase AlaT; Validated; Region: PRK09265 316407007236 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 316407007237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407007238 homodimer interface [polypeptide binding]; other site 316407007239 catalytic residue [active] 316407007240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407007241 Zn2+ binding site [ion binding]; other site 316407007242 Mg2+ binding site [ion binding]; other site 316407007243 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 316407007244 transmembrane helices; other site 316407007245 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 316407007246 TrkA-C domain; Region: TrkA_C; pfam02080 316407007247 TrkA-C domain; Region: TrkA_C; pfam02080 316407007248 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 316407007249 putative phosphatase; Provisional; Region: PRK11587 316407007250 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 316407007251 active site 316407007252 motif I; other site 316407007253 motif II; other site 316407007254 hypothetical protein; Validated; Region: PRK05445 316407007255 hypothetical protein; Provisional; Region: PRK01816 316407007256 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 316407007257 phosphate acetyltransferase; Reviewed; Region: PRK05632 316407007258 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 316407007259 DRTGG domain; Region: DRTGG; pfam07085 316407007260 phosphate acetyltransferase; Region: pta; TIGR00651 316407007261 hypothetical protein; Provisional; Region: PRK11588 316407007262 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 316407007263 nudix motif; other site 316407007264 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 316407007265 active site 316407007266 metal binding site [ion binding]; metal-binding site 316407007267 homotetramer interface [polypeptide binding]; other site 316407007268 glutathione S-transferase; Provisional; Region: PRK15113 316407007269 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 316407007270 C-terminal domain interface [polypeptide binding]; other site 316407007271 GSH binding site (G-site) [chemical binding]; other site 316407007272 dimer interface [polypeptide binding]; other site 316407007273 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 316407007274 N-terminal domain interface [polypeptide binding]; other site 316407007275 putative dimer interface [polypeptide binding]; other site 316407007276 putative substrate binding pocket (H-site) [chemical binding]; other site 316407007277 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 316407007278 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 316407007279 C-terminal domain interface [polypeptide binding]; other site 316407007280 GSH binding site (G-site) [chemical binding]; other site 316407007281 dimer interface [polypeptide binding]; other site 316407007282 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 316407007283 N-terminal domain interface [polypeptide binding]; other site 316407007284 putative dimer interface [polypeptide binding]; other site 316407007285 active site 316407007286 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 316407007287 homooctamer interface [polypeptide binding]; other site 316407007288 active site 316407007289 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 316407007290 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 316407007291 putative NAD(P) binding site [chemical binding]; other site 316407007292 putative active site [active] 316407007293 hypothetical protein; Provisional; Region: PRK09956 316407007294 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316407007295 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 316407007296 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316407007297 Walker A/P-loop; other site 316407007298 ATP binding site [chemical binding]; other site 316407007299 Q-loop/lid; other site 316407007300 ABC transporter signature motif; other site 316407007301 Walker B; other site 316407007302 D-loop; other site 316407007303 H-loop/switch region; other site 316407007304 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 316407007305 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 316407007306 dimer interface [polypeptide binding]; other site 316407007307 conserved gate region; other site 316407007308 putative PBP binding loops; other site 316407007309 ABC-ATPase subunit interface; other site 316407007310 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 316407007311 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 316407007312 dimer interface [polypeptide binding]; other site 316407007313 conserved gate region; other site 316407007314 putative PBP binding loops; other site 316407007315 ABC-ATPase subunit interface; other site 316407007316 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 316407007317 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 316407007318 substrate binding pocket [chemical binding]; other site 316407007319 membrane-bound complex binding site; other site 316407007320 hinge residues; other site 316407007321 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 316407007322 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 316407007323 substrate binding pocket [chemical binding]; other site 316407007324 membrane-bound complex binding site; other site 316407007325 hinge residues; other site 316407007326 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 316407007327 amidophosphoribosyltransferase; Provisional; Region: PRK09246 316407007328 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 316407007329 active site 316407007330 tetramer interface [polypeptide binding]; other site 316407007331 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407007332 active site 316407007333 colicin V production protein; Provisional; Region: PRK10845 316407007334 cell division protein DedD; Provisional; Region: PRK11633 316407007335 Sporulation related domain; Region: SPOR; pfam05036 316407007336 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 316407007337 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407007338 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407007339 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 316407007340 hypothetical protein; Provisional; Region: PRK10847 316407007341 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 316407007342 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 316407007343 dimerization interface 3.5A [polypeptide binding]; other site 316407007344 active site 316407007345 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 316407007346 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 316407007347 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 316407007348 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 316407007349 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 316407007350 ligand binding site [chemical binding]; other site 316407007351 NAD binding site [chemical binding]; other site 316407007352 catalytic site [active] 316407007353 homodimer interface [polypeptide binding]; other site 316407007354 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 316407007355 putative transporter; Provisional; Region: PRK12382 316407007356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407007357 putative substrate translocation pore; other site 316407007358 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 316407007359 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 316407007360 dimer interface [polypeptide binding]; other site 316407007361 active site 316407007362 Uncharacterized conserved protein [Function unknown]; Region: COG4121 316407007363 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 316407007364 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 316407007365 YfcL protein; Region: YfcL; pfam08891 316407007366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 316407007367 hypothetical protein; Provisional; Region: PRK10621 316407007368 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 316407007369 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 316407007370 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 316407007371 Tetramer interface [polypeptide binding]; other site 316407007372 active site 316407007373 FMN-binding site [chemical binding]; other site 316407007374 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 316407007375 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 316407007376 S-adenosylmethionine binding site [chemical binding]; other site 316407007377 hypothetical protein; Provisional; Region: PRK04946 316407007378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 316407007379 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 316407007380 Fimbrial protein; Region: Fimbrial; cl01416 316407007381 Fimbrial protein; Region: Fimbrial; cl01416 316407007382 Fimbrial protein; Region: Fimbrial; cl01416 316407007383 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407007384 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407007385 Outer membrane usher protein; Region: Usher; pfam00577 316407007386 PapC C-terminal domain; Region: PapC_C; pfam13953 316407007387 PapC N-terminal domain; Region: PapC_N; pfam13954 316407007388 Outer membrane usher protein; Region: Usher; pfam00577 316407007389 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407007390 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 316407007391 catalytic core [active] 316407007392 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 316407007393 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 316407007394 substrate binding site [chemical binding]; other site 316407007395 oxyanion hole (OAH) forming residues; other site 316407007396 trimer interface [polypeptide binding]; other site 316407007397 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316407007398 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407007399 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407007400 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 316407007401 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 316407007402 dimer interface [polypeptide binding]; other site 316407007403 active site 316407007404 conserved hypothetical protein; Region: TIGR00743 316407007405 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 316407007406 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 316407007407 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 316407007408 integrase; Provisional; Region: PRK09692 316407007409 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 316407007410 active site 316407007411 Int/Topo IB signature motif; other site 316407007412 Predicted membrane protein [Function unknown]; Region: COG2246 316407007413 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 316407007414 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 316407007415 Ligand binding site; other site 316407007416 Putative Catalytic site; other site 316407007417 DXD motif; other site 316407007418 CPS-53 (KpLE1) prophage region; ECK2347:JW5383:b2353; tail fiber assembly protein fragment 316407007419 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 316407007420 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 316407007421 PerC transcriptional activator; Region: PerC; pfam06069 316407007422 Uncharacterized conserved protein [Function unknown]; Region: COG5532 316407007423 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 316407007424 Protein of unknown function (DUF551); Region: DUF551; pfam04448 316407007425 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 316407007426 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 316407007427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407007428 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 316407007429 dimerization interface [polypeptide binding]; other site 316407007430 substrate binding pocket [chemical binding]; other site 316407007431 permease DsdX; Provisional; Region: PRK09921 316407007432 GntP family permease; Region: GntP_permease; pfam02447 316407007433 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 316407007434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407007435 catalytic residue [active] 316407007436 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316407007437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407007438 putative substrate translocation pore; other site 316407007439 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 316407007440 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407007441 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407007442 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 316407007443 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 316407007444 active site 316407007445 phosphorylation site [posttranslational modification] 316407007446 intermolecular recognition site; other site 316407007447 dimerization interface [polypeptide binding]; other site 316407007448 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 316407007449 DNA binding residues [nucleotide binding] 316407007450 dimerization interface [polypeptide binding]; other site 316407007451 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 316407007452 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 316407007453 substrate binding pocket [chemical binding]; other site 316407007454 membrane-bound complex binding site; other site 316407007455 hinge residues; other site 316407007456 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 316407007457 substrate binding pocket [chemical binding]; other site 316407007458 membrane-bound complex binding site; other site 316407007459 hinge residues; other site 316407007460 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 316407007461 dimer interface [polypeptide binding]; other site 316407007462 phosphorylation site [posttranslational modification] 316407007463 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 316407007464 ATP binding site [chemical binding]; other site 316407007465 Mg2+ binding site [ion binding]; other site 316407007466 G-X-G motif; other site 316407007467 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 316407007468 active site 316407007469 phosphorylation site [posttranslational modification] 316407007470 intermolecular recognition site; other site 316407007471 dimerization interface [polypeptide binding]; other site 316407007472 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 316407007473 putative binding surface; other site 316407007474 active site 316407007475 putative CoA-transferase; Provisional; Region: PRK11430 316407007476 putative transporter YfdV; Provisional; Region: PRK09903 316407007477 oxalyl-CoA decarboxylase; Region: oxalate_oxc; TIGR03254 316407007478 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316407007479 PYR/PP interface [polypeptide binding]; other site 316407007480 dimer interface [polypeptide binding]; other site 316407007481 TPP binding site [chemical binding]; other site 316407007482 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316407007483 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 316407007484 TPP-binding site; other site 316407007485 dimer interface [polypeptide binding]; other site 316407007486 formyl-coenzyme A transferase; Provisional; Region: PRK05398 316407007487 hypothetical protein; Provisional; Region: PRK10316 316407007488 YfdX protein; Region: YfdX; pfam10938 316407007489 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 316407007490 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 316407007491 putative acyl-acceptor binding pocket; other site 316407007492 aminotransferase; Validated; Region: PRK08175 316407007493 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 316407007494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407007495 homodimer interface [polypeptide binding]; other site 316407007496 catalytic residue [active] 316407007497 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 316407007498 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 316407007499 GAF domain; Region: GAF; pfam01590 316407007500 Histidine kinase; Region: His_kinase; pfam06580 316407007501 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 316407007502 ATP binding site [chemical binding]; other site 316407007503 Mg2+ binding site [ion binding]; other site 316407007504 G-X-G motif; other site 316407007505 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 316407007506 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 316407007507 active site 316407007508 phosphorylation site [posttranslational modification] 316407007509 intermolecular recognition site; other site 316407007510 dimerization interface [polypeptide binding]; other site 316407007511 LytTr DNA-binding domain; Region: LytTR; pfam04397 316407007512 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407007513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407007514 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 316407007515 dimerization domain swap beta strand [polypeptide binding]; other site 316407007516 regulatory protein interface [polypeptide binding]; other site 316407007517 active site 316407007518 regulatory phosphorylation site [posttranslational modification]; other site 316407007519 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 316407007520 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 316407007521 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407007522 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316407007523 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 316407007524 active site 316407007525 phosphorylation site [posttranslational modification] 316407007526 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 316407007527 oligomer interface [polypeptide binding]; other site 316407007528 active site 316407007529 metal binding site [ion binding]; metal-binding site 316407007530 aminopeptidase; Provisional; Region: PRK09795 316407007531 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 316407007532 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 316407007533 active site 316407007534 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316407007535 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 316407007536 active site 316407007537 P-loop; other site 316407007538 phosphorylation site [posttranslational modification] 316407007539 glucokinase; Provisional; Region: glk; PRK00292 316407007540 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407007541 nucleotide binding site [chemical binding]; other site 316407007542 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 316407007543 Cl- selectivity filter; other site 316407007544 Cl- binding residues [ion binding]; other site 316407007545 pore gating glutamate residue; other site 316407007546 dimer interface [polypeptide binding]; other site 316407007547 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 316407007548 manganese transport protein MntH; Reviewed; Region: PRK00701 316407007549 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 316407007550 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 316407007551 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 316407007552 Nucleoside recognition; Region: Gate; pfam07670 316407007553 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 316407007554 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316407007555 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407007556 MASE1; Region: MASE1; pfam05231 316407007557 diguanylate cyclase; Region: GGDEF; smart00267 316407007558 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 316407007559 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 316407007560 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 316407007561 salt bridge; other site 316407007562 non-specific DNA binding site [nucleotide binding]; other site 316407007563 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 316407007564 sequence-specific DNA binding site [nucleotide binding]; other site 316407007565 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 316407007566 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 316407007567 active site 316407007568 HIGH motif; other site 316407007569 KMSKS motif; other site 316407007570 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 316407007571 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 316407007572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407007573 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 316407007574 putative dimerization interface [polypeptide binding]; other site 316407007575 putative substrate binding pocket [chemical binding]; other site 316407007576 nucleoside transporter; Region: 2A0110; TIGR00889 316407007577 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 316407007578 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 316407007579 purine nucleoside phosphorylase; Provisional; Region: PRK08202 316407007580 hypothetical protein; Provisional; Region: PRK11528 316407007581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407007582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407007583 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 316407007584 putative dimerization interface [polypeptide binding]; other site 316407007585 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 316407007586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 316407007587 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 316407007588 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 316407007589 nucleotide binding pocket [chemical binding]; other site 316407007590 K-X-D-G motif; other site 316407007591 catalytic site [active] 316407007592 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316407007593 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 316407007594 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 316407007595 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 316407007596 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 316407007597 Dimer interface [polypeptide binding]; other site 316407007598 BRCT sequence motif; other site 316407007599 cell division protein ZipA; Provisional; Region: PRK03427 316407007600 hypothetical protein; Provisional; Region: PHA03160 316407007601 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 316407007602 FtsZ protein binding site [polypeptide binding]; other site 316407007603 putative sulfate transport protein CysZ; Validated; Region: PRK04949 316407007604 cysteine synthase; Region: PLN02565 316407007605 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 316407007606 dimer interface [polypeptide binding]; other site 316407007607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407007608 catalytic residue [active] 316407007609 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 316407007610 dimerization domain swap beta strand [polypeptide binding]; other site 316407007611 regulatory protein interface [polypeptide binding]; other site 316407007612 active site 316407007613 regulatory phosphorylation site [posttranslational modification]; other site 316407007614 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 316407007615 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 316407007616 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407007617 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316407007618 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 316407007619 HPr interaction site; other site 316407007620 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316407007621 active site 316407007622 phosphorylation site [posttranslational modification] 316407007623 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 316407007624 dimer interface [polypeptide binding]; other site 316407007625 pyridoxal binding site [chemical binding]; other site 316407007626 ATP binding site [chemical binding]; other site 316407007627 hypothetical protein; Provisional; Region: PRK10318 316407007628 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 316407007629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 316407007630 cysteine synthase; Region: PLN02565 316407007631 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 316407007632 dimer interface [polypeptide binding]; other site 316407007633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407007634 catalytic residue [active] 316407007635 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 316407007636 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 316407007637 Walker A/P-loop; other site 316407007638 ATP binding site [chemical binding]; other site 316407007639 Q-loop/lid; other site 316407007640 ABC transporter signature motif; other site 316407007641 Walker B; other site 316407007642 D-loop; other site 316407007643 H-loop/switch region; other site 316407007644 TOBE-like domain; Region: TOBE_3; pfam12857 316407007645 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316407007646 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 316407007647 dimer interface [polypeptide binding]; other site 316407007648 conserved gate region; other site 316407007649 putative PBP binding loops; other site 316407007650 ABC-ATPase subunit interface; other site 316407007651 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316407007652 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 316407007653 dimer interface [polypeptide binding]; other site 316407007654 conserved gate region; other site 316407007655 putative PBP binding loops; other site 316407007656 ABC-ATPase subunit interface; other site 316407007657 thiosulfate transporter subunit; Provisional; Region: PRK10852 316407007658 short chain dehydrogenase; Provisional; Region: PRK08226 316407007659 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 316407007660 NAD binding site [chemical binding]; other site 316407007661 homotetramer interface [polypeptide binding]; other site 316407007662 homodimer interface [polypeptide binding]; other site 316407007663 active site 316407007664 transcriptional regulator MurR; Provisional; Region: PRK15482 316407007665 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316407007666 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 316407007667 putative active site [active] 316407007668 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 316407007669 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 316407007670 putative active site [active] 316407007671 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 316407007672 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 316407007673 active site turn [active] 316407007674 phosphorylation site [posttranslational modification] 316407007675 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407007676 putative periplasmic esterase; Provisional; Region: PRK03642 316407007677 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 316407007678 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 316407007679 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 316407007680 putative acetyltransferase; Provisional; Region: PRK03624 316407007681 Uncharacterized conserved protein [Function unknown]; Region: COG3375 316407007682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407007683 Coenzyme A binding pocket [chemical binding]; other site 316407007684 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 316407007685 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 316407007686 active site 316407007687 metal binding site [ion binding]; metal-binding site 316407007688 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 316407007689 transcriptional regulator EutR; Provisional; Region: PRK10130 316407007690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407007691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407007692 carboxysome structural protein EutK; Provisional; Region: PRK15466 316407007693 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 316407007694 Hexamer interface [polypeptide binding]; other site 316407007695 Hexagonal pore residue; other site 316407007696 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 316407007697 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 316407007698 putative hexamer interface [polypeptide binding]; other site 316407007699 putative hexagonal pore; other site 316407007700 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 316407007701 putative hexamer interface [polypeptide binding]; other site 316407007702 putative hexagonal pore; other site 316407007703 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 316407007704 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 316407007705 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 316407007706 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 316407007707 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 316407007708 active site 316407007709 metal binding site [ion binding]; metal-binding site 316407007710 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 316407007711 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407007712 nucleotide binding site [chemical binding]; other site 316407007713 nucleotide binding site [chemical binding]; other site 316407007714 Cell division protein FtsA; Region: FtsA; cl17206 316407007715 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 316407007716 putative catalytic cysteine [active] 316407007717 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 316407007718 Hexamer/Pentamer interface [polypeptide binding]; other site 316407007719 central pore; other site 316407007720 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 316407007721 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 316407007722 Hexamer interface [polypeptide binding]; other site 316407007723 Hexagonal pore residue; other site 316407007724 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 316407007725 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 316407007726 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 316407007727 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 316407007728 G1 box; other site 316407007729 GTP/Mg2+ binding site [chemical binding]; other site 316407007730 G2 box; other site 316407007731 Switch I region; other site 316407007732 G3 box; other site 316407007733 Switch II region; other site 316407007734 G4 box; other site 316407007735 G5 box; other site 316407007736 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 316407007737 putative hexamer interface [polypeptide binding]; other site 316407007738 putative hexagonal pore; other site 316407007739 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 316407007740 Malic enzyme, N-terminal domain; Region: malic; pfam00390 316407007741 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 316407007742 putative NAD(P) binding site [chemical binding]; other site 316407007743 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 316407007744 transaldolase-like protein; Provisional; Region: PTZ00411 316407007745 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 316407007746 active site 316407007747 dimer interface [polypeptide binding]; other site 316407007748 catalytic residue [active] 316407007749 transketolase; Reviewed; Region: PRK12753 316407007750 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 316407007751 TPP-binding site [chemical binding]; other site 316407007752 dimer interface [polypeptide binding]; other site 316407007753 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 316407007754 PYR/PP interface [polypeptide binding]; other site 316407007755 dimer interface [polypeptide binding]; other site 316407007756 TPP binding site [chemical binding]; other site 316407007757 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316407007758 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 316407007759 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 316407007760 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 316407007761 dimer interface [polypeptide binding]; other site 316407007762 ADP-ribose binding site [chemical binding]; other site 316407007763 active site 316407007764 nudix motif; other site 316407007765 metal binding site [ion binding]; metal-binding site 316407007766 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 316407007767 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; cl19102 316407007768 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 316407007769 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407007770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407007771 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 316407007772 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 316407007773 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 316407007774 dimerization interface [polypeptide binding]; other site 316407007775 Histidine kinase; Region: HisKA_3; pfam07730 316407007776 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 316407007777 ATP binding site [chemical binding]; other site 316407007778 Mg2+ binding site [ion binding]; other site 316407007779 G-X-G motif; other site 316407007780 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 316407007781 MMPL family; Region: MMPL; cl14618 316407007782 MMPL family; Region: MMPL; cl14618 316407007783 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 316407007784 putative catalytic residues [active] 316407007785 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 316407007786 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 316407007787 metal binding site [ion binding]; metal-binding site 316407007788 dimer interface [polypeptide binding]; other site 316407007789 hypothetical protein; Provisional; Region: PRK13664 316407007790 putative hydrolase; Provisional; Region: PRK11460 316407007791 Predicted esterase [General function prediction only]; Region: COG0400 316407007792 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 316407007793 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 316407007794 Helicase; Region: Helicase_RecD; pfam05127 316407007795 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 316407007796 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 316407007797 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 316407007798 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 316407007799 ATP binding site [chemical binding]; other site 316407007800 active site 316407007801 substrate binding site [chemical binding]; other site 316407007802 lipoprotein; Provisional; Region: PRK11679 316407007803 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 316407007804 dimer interface [polypeptide binding]; other site 316407007805 active site 316407007806 catalytic residue [active] 316407007807 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 316407007808 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 316407007809 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 316407007810 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 316407007811 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 316407007812 catalytic triad [active] 316407007813 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316407007814 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; cl19102 316407007815 hydrogenase 4 subunit B; Validated; Region: PRK06521 316407007816 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007817 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316407007818 hydrogenase 4 subunit D; Validated; Region: PRK06525 316407007819 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007820 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 316407007821 hydrogenase 4 subunit F; Validated; Region: PRK06458 316407007822 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407007823 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 316407007824 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316407007825 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 316407007826 hydrogenase 4 subunit H; Validated; Region: PRK08222 316407007827 4Fe-4S binding domain; Region: Fer4; pfam00037 316407007828 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316407007829 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 316407007830 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 316407007831 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407007832 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 316407007833 Walker A motif; other site 316407007834 ATP binding site [chemical binding]; other site 316407007835 Walker B motif; other site 316407007836 arginine finger; other site 316407007837 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407007838 putative formate transporter; Provisional; Region: focB; PRK09713 316407007839 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 316407007840 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 316407007841 Peptidase family M48; Region: Peptidase_M48; cl12018 316407007842 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 316407007843 catalytic residues [active] 316407007844 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 316407007845 DNA replication initiation factor; Provisional; Region: PRK08084 316407007846 uracil transporter; Provisional; Region: PRK10720 316407007847 uracil-xanthine permease; Region: ncs2; TIGR00801 316407007848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407007849 active site 316407007850 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 316407007851 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 316407007852 dimerization interface [polypeptide binding]; other site 316407007853 putative ATP binding site [chemical binding]; other site 316407007854 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 316407007855 active site 316407007856 substrate binding site [chemical binding]; other site 316407007857 cosubstrate binding site; other site 316407007858 catalytic site [active] 316407007859 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 316407007860 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 316407007861 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 316407007862 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 316407007863 domain interface [polypeptide binding]; other site 316407007864 active site 316407007865 catalytic site [active] 316407007866 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 316407007867 domain interface [polypeptide binding]; other site 316407007868 active site 316407007869 catalytic site [active] 316407007870 exopolyphosphatase; Provisional; Region: PRK10854 316407007871 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316407007872 MASE1; Region: MASE1; pfam05231 316407007873 diguanylate cyclase; Region: GGDEF; smart00267 316407007874 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 316407007875 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 316407007876 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 316407007877 GMP synthase; Reviewed; Region: guaA; PRK00074 316407007878 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 316407007879 AMP/PPi binding site [chemical binding]; other site 316407007880 candidate oxyanion hole; other site 316407007881 catalytic triad [active] 316407007882 potential glutamine specificity residues [chemical binding]; other site 316407007883 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 316407007884 ATP Binding subdomain [chemical binding]; other site 316407007885 Ligand Binding sites [chemical binding]; other site 316407007886 Dimerization subdomain; other site 316407007887 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 316407007888 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 316407007889 active site 316407007890 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 316407007891 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 316407007892 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 316407007893 generic binding surface II; other site 316407007894 generic binding surface I; other site 316407007895 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 316407007896 GTP-binding protein Der; Reviewed; Region: PRK00093 316407007897 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 316407007898 G1 box; other site 316407007899 GTP/Mg2+ binding site [chemical binding]; other site 316407007900 Switch I region; other site 316407007901 G2 box; other site 316407007902 Switch II region; other site 316407007903 G3 box; other site 316407007904 G4 box; other site 316407007905 G5 box; other site 316407007906 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 316407007907 G1 box; other site 316407007908 GTP/Mg2+ binding site [chemical binding]; other site 316407007909 Switch I region; other site 316407007910 G2 box; other site 316407007911 G3 box; other site 316407007912 Switch II region; other site 316407007913 G4 box; other site 316407007914 G5 box; other site 316407007915 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 316407007916 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 316407007917 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 316407007918 Trp docking motif [polypeptide binding]; other site 316407007919 active site 316407007920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 316407007921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 316407007922 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 316407007923 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 316407007924 dimer interface [polypeptide binding]; other site 316407007925 motif 1; other site 316407007926 active site 316407007927 motif 2; other site 316407007928 motif 3; other site 316407007929 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 316407007930 anticodon binding site; other site 316407007931 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 316407007932 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 316407007933 cytoskeletal protein RodZ; Provisional; Region: PRK10856 316407007934 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 316407007935 non-specific DNA binding site [nucleotide binding]; other site 316407007936 salt bridge; other site 316407007937 sequence-specific DNA binding site [nucleotide binding]; other site 316407007938 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 316407007939 23S rRNA m2A2503 methyltransferase; Region: TIGR00048 316407007940 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 316407007941 FeS/SAM binding site; other site 316407007942 Nucleoside diphosphate kinase; Region: NDK; pfam00334 316407007943 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 316407007944 active site 316407007945 multimer interface [polypeptide binding]; other site 316407007946 penicillin-binding protein 1C; Provisional; Region: PRK11240 316407007947 Transglycosylase; Region: Transgly; pfam00912 316407007948 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316407007949 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 316407007950 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 316407007951 MG2 domain; Region: A2M_N; pfam01835 316407007952 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 316407007953 Alpha-2-macroglobulin family; Region: A2M; pfam00207 316407007954 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 316407007955 surface patch; other site 316407007956 thioester region; other site 316407007957 specificity defining residues; other site 316407007958 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 316407007959 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 316407007960 active site residue [active] 316407007961 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 316407007962 active site residue [active] 316407007963 SseB protein N-terminal domain; Region: SseB; pfam07179 316407007964 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 316407007965 SseB protein C-terminal domain; Region: SseB_C; pfam14581 316407007966 aminopeptidase B; Provisional; Region: PRK05015 316407007967 Peptidase; Region: DUF3663; pfam12404 316407007968 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 316407007969 interface (dimer of trimers) [polypeptide binding]; other site 316407007970 Substrate-binding/catalytic site; other site 316407007971 Zn-binding sites [ion binding]; other site 316407007972 hypothetical protein; Provisional; Region: PRK10721 316407007973 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 316407007974 catalytic loop [active] 316407007975 iron binding site [ion binding]; other site 316407007976 chaperone protein HscA; Provisional; Region: hscA; PRK05183 316407007977 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 316407007978 nucleotide binding site [chemical binding]; other site 316407007979 putative NEF/HSP70 interaction site [polypeptide binding]; other site 316407007980 SBD interface [polypeptide binding]; other site 316407007981 co-chaperone HscB; Provisional; Region: hscB; PRK05014 316407007982 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 316407007983 HSP70 interaction site [polypeptide binding]; other site 316407007984 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 316407007985 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 316407007986 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 316407007987 trimerization site [polypeptide binding]; other site 316407007988 active site 316407007989 cysteine desulfurase; Provisional; Region: PRK14012 316407007990 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407007991 catalytic residue [active] 316407007992 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 316407007993 Rrf2 family protein; Region: rrf2_super; TIGR00738 316407007994 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 316407007995 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 316407007996 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 316407007997 active site 316407007998 dimerization interface [polypeptide binding]; other site 316407007999 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 316407008000 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 316407008001 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 316407008002 PRD domain; Region: PRD; pfam00874 316407008003 PRD domain; Region: PRD; pfam00874 316407008004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008005 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 316407008006 putative substrate translocation pore; other site 316407008007 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 316407008008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407008009 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 316407008010 dimerization interface [polypeptide binding]; other site 316407008011 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 316407008012 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 316407008013 iron-sulfur cluster [ion binding]; other site 316407008014 [2Fe-2S] cluster binding site [ion binding]; other site 316407008015 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 316407008016 beta subunit interface [polypeptide binding]; other site 316407008017 alpha subunit interface [polypeptide binding]; other site 316407008018 active site 316407008019 substrate binding site [chemical binding]; other site 316407008020 Fe binding site [ion binding]; other site 316407008021 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 316407008022 inter-subunit interface; other site 316407008023 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 316407008024 [2Fe-2S] cluster binding site [ion binding]; other site 316407008025 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 316407008026 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 316407008027 NAD binding site [chemical binding]; other site 316407008028 active site 316407008029 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 316407008030 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316407008031 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407008032 Reductase C-terminal; Region: Reductase_C; pfam14759 316407008033 Predicted membrane protein [Function unknown]; Region: COG2259 316407008034 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 316407008035 active site 316407008036 catalytic residues [active] 316407008037 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407008038 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 316407008039 putative NAD(P) binding site [chemical binding]; other site 316407008040 catalytic Zn binding site [ion binding]; other site 316407008041 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 316407008042 TM-ABC transporter signature motif; other site 316407008043 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 316407008044 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407008045 Walker A/P-loop; other site 316407008046 ATP binding site [chemical binding]; other site 316407008047 Q-loop/lid; other site 316407008048 ABC transporter signature motif; other site 316407008049 Walker B; other site 316407008050 D-loop; other site 316407008051 H-loop/switch region; other site 316407008052 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407008053 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 316407008054 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 316407008055 ligand binding site [chemical binding]; other site 316407008056 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 316407008057 TPR motif; other site 316407008058 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316407008059 binding surface 316407008060 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 316407008061 binding surface 316407008062 Tetratricopeptide repeat; Region: TPR_16; pfam13432 316407008063 TPR motif; other site 316407008064 TPR repeat; Region: TPR_11; pfam13414 316407008065 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 316407008066 TPR motif; other site 316407008067 binding surface 316407008068 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 316407008069 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407008070 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407008071 nucleotide binding site [chemical binding]; other site 316407008072 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 316407008073 dimer interface [polypeptide binding]; other site 316407008074 active site 316407008075 glycine-pyridoxal phosphate binding site [chemical binding]; other site 316407008076 folate binding site [chemical binding]; other site 316407008077 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 316407008078 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 316407008079 heme-binding site [chemical binding]; other site 316407008080 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 316407008081 FAD binding pocket [chemical binding]; other site 316407008082 FAD binding motif [chemical binding]; other site 316407008083 phosphate binding motif [ion binding]; other site 316407008084 beta-alpha-beta structure motif; other site 316407008085 NAD binding pocket [chemical binding]; other site 316407008086 Heme binding pocket [chemical binding]; other site 316407008087 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 316407008088 response regulator GlrR; Provisional; Region: PRK15115 316407008089 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 316407008090 active site 316407008091 phosphorylation site [posttranslational modification] 316407008092 intermolecular recognition site; other site 316407008093 dimerization interface [polypeptide binding]; other site 316407008094 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 316407008095 Walker A motif; other site 316407008096 ATP binding site [chemical binding]; other site 316407008097 Walker B motif; other site 316407008098 arginine finger; other site 316407008099 hypothetical protein; Provisional; Region: PRK10722 316407008100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 316407008101 HAMP domain; Region: HAMP; pfam00672 316407008102 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 316407008103 dimer interface [polypeptide binding]; other site 316407008104 phosphorylation site [posttranslational modification] 316407008105 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 316407008106 ATP binding site [chemical binding]; other site 316407008107 Mg2+ binding site [ion binding]; other site 316407008108 G-X-G motif; other site 316407008109 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 316407008110 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 316407008111 dimerization interface [polypeptide binding]; other site 316407008112 ATP binding site [chemical binding]; other site 316407008113 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 316407008114 dimerization interface [polypeptide binding]; other site 316407008115 ATP binding site [chemical binding]; other site 316407008116 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 316407008117 putative active site [active] 316407008118 catalytic triad [active] 316407008119 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 316407008120 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 316407008121 substrate binding pocket [chemical binding]; other site 316407008122 membrane-bound complex binding site; other site 316407008123 hinge residues; other site 316407008124 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 316407008125 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407008126 catalytic residue [active] 316407008127 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 316407008128 nucleoside/Zn binding site; other site 316407008129 dimer interface [polypeptide binding]; other site 316407008130 catalytic motif [active] 316407008131 hypothetical protein; Provisional; Region: PRK11590 316407008132 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 316407008133 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316407008134 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 316407008135 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 316407008136 putative active site [active] 316407008137 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 316407008138 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 316407008139 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 316407008140 active site 316407008141 hydrophilic channel; other site 316407008142 dimerization interface [polypeptide binding]; other site 316407008143 catalytic residues [active] 316407008144 active site lid [active] 316407008145 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 316407008146 Recombination protein O N terminal; Region: RecO_N; pfam11967 316407008147 Recombination protein O C terminal; Region: RecO_C; pfam02565 316407008148 GTPase Era; Reviewed; Region: era; PRK00089 316407008149 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 316407008150 G1 box; other site 316407008151 GTP/Mg2+ binding site [chemical binding]; other site 316407008152 Switch I region; other site 316407008153 G2 box; other site 316407008154 Switch II region; other site 316407008155 G3 box; other site 316407008156 G4 box; other site 316407008157 G5 box; other site 316407008158 KH domain; Region: KH_2; pfam07650 316407008159 ribonuclease III; Reviewed; Region: rnc; PRK00102 316407008160 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 316407008161 dimerization interface [polypeptide binding]; other site 316407008162 active site 316407008163 metal binding site [ion binding]; metal-binding site 316407008164 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 316407008165 dsRNA binding site [nucleotide binding]; other site 316407008166 signal peptidase I; Provisional; Region: PRK10861 316407008167 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 316407008168 Catalytic site [active] 316407008169 GTP-binding protein LepA; Provisional; Region: PRK05433 316407008170 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 316407008171 G1 box; other site 316407008172 putative GEF interaction site [polypeptide binding]; other site 316407008173 GTP/Mg2+ binding site [chemical binding]; other site 316407008174 Switch I region; other site 316407008175 G2 box; other site 316407008176 G3 box; other site 316407008177 Switch II region; other site 316407008178 G4 box; other site 316407008179 G5 box; other site 316407008180 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 316407008181 Elongation Factor G, domain II; Region: EFG_II; pfam14492 316407008182 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 316407008183 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 316407008184 SoxR reducing system protein RseC; Provisional; Region: PRK10862 316407008185 anti-sigma E factor; Provisional; Region: rseB; PRK09455 316407008186 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 316407008187 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 316407008188 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 316407008189 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 316407008190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407008191 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 316407008192 DNA binding residues [nucleotide binding] 316407008193 L-aspartate oxidase; Provisional; Region: PRK09077 316407008194 L-aspartate oxidase; Provisional; Region: PRK06175 316407008195 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316407008196 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 316407008197 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 316407008198 S-adenosylmethionine binding site [chemical binding]; other site 316407008199 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 316407008200 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 316407008201 ATP binding site [chemical binding]; other site 316407008202 Mg++ binding site [ion binding]; other site 316407008203 motif III; other site 316407008204 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 316407008205 nucleotide binding region [chemical binding]; other site 316407008206 ATP-binding site [chemical binding]; other site 316407008207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407008208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407008209 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 316407008210 dimerization interface [polypeptide binding]; other site 316407008211 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 316407008212 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 316407008213 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 316407008214 ligand binding site [chemical binding]; other site 316407008215 active site 316407008216 UGI interface [polypeptide binding]; other site 316407008217 catalytic site [active] 316407008218 putative methyltransferase; Provisional; Region: PRK10864 316407008219 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 316407008220 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316407008221 thioredoxin 2; Provisional; Region: PRK10996 316407008222 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 316407008223 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 316407008224 catalytic residues [active] 316407008225 Uncharacterized conserved protein [Function unknown]; Region: COG3148 316407008226 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 316407008227 CoA binding domain; Region: CoA_binding_2; pfam13380 316407008228 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 316407008229 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 316407008230 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 316407008231 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 316407008232 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 316407008233 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 316407008234 domain interface [polypeptide binding]; other site 316407008235 putative active site [active] 316407008236 catalytic site [active] 316407008237 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 316407008238 domain interface [polypeptide binding]; other site 316407008239 putative active site [active] 316407008240 catalytic site [active] 316407008241 lipoprotein; Provisional; Region: PRK10759 316407008242 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 316407008243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008244 putative substrate translocation pore; other site 316407008245 protein disaggregation chaperone; Provisional; Region: PRK10865 316407008246 Clp amino terminal domain; Region: Clp_N; pfam02861 316407008247 Clp amino terminal domain; Region: Clp_N; pfam02861 316407008248 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 316407008249 Walker A motif; other site 316407008250 ATP binding site [chemical binding]; other site 316407008251 Walker B motif; other site 316407008252 arginine finger; other site 316407008253 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 316407008254 Walker A motif; other site 316407008255 ATP binding site [chemical binding]; other site 316407008256 Walker B motif; other site 316407008257 arginine finger; other site 316407008258 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 316407008259 hypothetical protein; Provisional; Region: PRK10723 316407008260 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 316407008261 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 316407008262 RNA binding surface [nucleotide binding]; other site 316407008263 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 316407008264 active site 316407008265 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 316407008266 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 316407008267 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 316407008268 30S subunit binding site; other site 316407008269 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 316407008270 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 316407008271 Prephenate dehydratase; Region: PDT; pfam00800 316407008272 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 316407008273 putative L-Phe binding site [chemical binding]; other site 316407008274 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 316407008275 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 316407008276 prephenate dehydrogenase; Validated; Region: PRK08507 316407008277 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 316407008278 lipoprotein; Provisional; Region: PRK11443 316407008279 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 316407008280 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 316407008281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407008282 metal binding site [ion binding]; metal-binding site 316407008283 active site 316407008284 I-site; other site 316407008285 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 316407008286 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316407008287 ligand binding site [chemical binding]; other site 316407008288 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 316407008289 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 316407008290 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 316407008291 RimM N-terminal domain; Region: RimM; pfam01782 316407008292 PRC-barrel domain; Region: PRC; pfam05239 316407008293 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 316407008294 signal recognition particle protein; Provisional; Region: PRK10867 316407008295 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 316407008296 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 316407008297 P loop; other site 316407008298 GTP binding site [chemical binding]; other site 316407008299 Signal peptide binding domain; Region: SRP_SPB; pfam02978 316407008300 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 316407008301 hypothetical protein; Provisional; Region: PRK11573 316407008302 Domain of unknown function DUF21; Region: DUF21; pfam01595 316407008303 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 316407008304 Transporter associated domain; Region: CorC_HlyC; smart01091 316407008305 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; cl19511 316407008306 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 316407008307 dimer interface [polypeptide binding]; other site 316407008308 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 316407008309 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 316407008310 recombination and repair protein; Provisional; Region: PRK10869 316407008311 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316407008312 Walker A/P-loop; other site 316407008313 ATP binding site [chemical binding]; other site 316407008314 Q-loop/lid; other site 316407008315 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 316407008316 Q-loop/lid; other site 316407008317 ABC transporter signature motif; other site 316407008318 Walker B; other site 316407008319 D-loop; other site 316407008320 H-loop/switch region; other site 316407008321 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 316407008322 hypothetical protein; Validated; Region: PRK01777 316407008323 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 316407008324 putative coenzyme Q binding site [chemical binding]; other site 316407008325 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 316407008326 SmpB-tmRNA interface; other site 316407008327 integrase; Provisional; Region: PRK09692 316407008328 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 316407008329 active site 316407008330 Int/Topo IB signature motif; other site 316407008331 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 316407008332 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 316407008333 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 316407008334 Superfamily II helicase [General function prediction only]; Region: COG1204 316407008335 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 316407008336 ATP binding site [chemical binding]; other site 316407008337 putative Mg++ binding site [ion binding]; other site 316407008338 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316407008339 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 316407008340 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 316407008341 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 316407008342 Predicted GTPase [General function prediction only]; Region: COG3596 316407008343 YfjP GTPase; Region: YfjP; cd11383 316407008344 G1 box; other site 316407008345 GTP/Mg2+ binding site [chemical binding]; other site 316407008346 Switch I region; other site 316407008347 G2 box; other site 316407008348 Switch II region; other site 316407008349 G3 box; other site 316407008350 G4 box; other site 316407008351 G5 box; other site 316407008352 Domain of unknown function (DUF932); Region: DUF932; pfam06067 316407008353 Predicted transcriptional regulator [Transcription]; Region: COG2378 316407008354 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 316407008355 WYL domain; Region: WYL; pfam13280 316407008356 Predicted transcriptional regulator [Transcription]; Region: COG2378 316407008357 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 316407008358 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 316407008359 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 316407008360 CP4-57 prophage region; ECK2637:JW5420:b2641; hypothetical protein 316407008361 Antirestriction protein; Region: Antirestrict; pfam03230 316407008362 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 316407008363 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316407008364 MPN+ (JAMM) motif; other site 316407008365 Zinc-binding site [ion binding]; other site 316407008366 Protein of unknown function (DUF987); Region: DUF987; pfam06174 316407008367 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 316407008368 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 316407008369 hypothetical protein; Provisional; Region: PRK09945 316407008370 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 316407008371 hypothetical protein; Provisional; Region: PRK09945 316407008372 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 316407008373 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 316407008374 Autotransporter beta-domain; Region: Autotransporter; pfam03797 316407008375 ECK2645:JW5423:b2648; predicted invertase fragment 316407008376 potential frameshift: common BLAST hit: gi|386615370|ref|YP_006135036.1| alpha amylase 316407008377 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 316407008378 ECK2651:JW5426:b2657; conserved hypothetical protein 316407008379 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 316407008380 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 316407008381 substrate binding pocket [chemical binding]; other site 316407008382 active site 316407008383 iron coordination sites [ion binding]; other site 316407008384 hydroxyglutarate oxidase; Provisional; Region: PRK11728 316407008385 Predicted dehydrogenase [General function prediction only]; Region: COG0579 316407008386 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 316407008387 tetramerization interface [polypeptide binding]; other site 316407008388 NAD(P) binding site [chemical binding]; other site 316407008389 catalytic residues [active] 316407008390 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 316407008391 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407008392 inhibitor-cofactor binding pocket; inhibition site 316407008393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407008394 catalytic residue [active] 316407008395 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 316407008396 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407008397 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 316407008398 helix_turn_helix gluconate operon transcriptional repressor; Region: HTH_GNTR; smart00345 316407008399 DNA-binding site [nucleotide binding]; DNA binding site 316407008400 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407008401 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 316407008402 bacterial OsmY and nodulation domain; Region: BON; smart00749 316407008403 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407008404 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 316407008405 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 316407008406 dimerization interface [polypeptide binding]; other site 316407008407 putative DNA binding site [nucleotide binding]; other site 316407008408 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316407008409 putative Zn2+ binding site [ion binding]; other site 316407008410 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 316407008411 active site residue [active] 316407008412 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 316407008413 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 316407008414 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 316407008415 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 316407008416 hypothetical protein; Provisional; Region: PRK10556 316407008417 hypothetical protein; Provisional; Region: PRK10132 316407008418 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 316407008419 catalytic residues [active] 316407008420 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 316407008421 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 316407008422 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 316407008423 Class I ribonucleotide reductase; Region: RNR_I; cd01679 316407008424 active site 316407008425 dimer interface [polypeptide binding]; other site 316407008426 catalytic residues [active] 316407008427 effector binding site; other site 316407008428 R2 peptide binding site; other site 316407008429 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 316407008430 dimer interface [polypeptide binding]; other site 316407008431 putative radical transfer pathway; other site 316407008432 diiron center [ion binding]; other site 316407008433 tyrosyl radical; other site 316407008434 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 316407008435 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 316407008436 Walker A/P-loop; other site 316407008437 ATP binding site [chemical binding]; other site 316407008438 Q-loop/lid; other site 316407008439 ABC transporter signature motif; other site 316407008440 Walker B; other site 316407008441 D-loop; other site 316407008442 H-loop/switch region; other site 316407008443 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 316407008444 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 316407008445 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 316407008446 dimer interface [polypeptide binding]; other site 316407008447 conserved gate region; other site 316407008448 putative PBP binding loops; other site 316407008449 ABC-ATPase subunit interface; other site 316407008450 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 316407008451 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 316407008452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008453 ECK2675:JW5428:b2681; predicted transporter 316407008454 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 316407008455 putative L-valine exporter; Provisional; Region: PRK10408 316407008456 transcriptional repressor MprA; Provisional; Region: PRK10870 316407008457 Transcriptional regulators [Transcription]; Region: MarR; COG1846 316407008458 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 316407008459 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407008460 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407008461 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 316407008462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008463 putative substrate translocation pore; other site 316407008464 S-ribosylhomocysteinase; Provisional; Region: PRK02260 316407008465 glutamate--cysteine ligase; Provisional; Region: PRK02107 316407008466 Predicted membrane protein [Function unknown]; Region: COG1238 316407008467 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 316407008468 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 316407008469 active site 316407008470 motif I; other site 316407008471 motif II; other site 316407008472 carbon storage regulator; Provisional; Region: PRK01712 316407008473 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 316407008474 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 316407008475 motif 1; other site 316407008476 active site 316407008477 motif 2; other site 316407008478 motif 3; other site 316407008479 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 316407008480 DHHA1 domain; Region: DHHA1; pfam02272 316407008481 recombination regulator RecX; Reviewed; Region: recX; PRK00117 316407008482 recombinase A; Provisional; Region: recA; PRK09354 316407008483 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 316407008484 hexamer interface [polypeptide binding]; other site 316407008485 Walker A motif; other site 316407008486 ATP binding site [chemical binding]; other site 316407008487 Walker B motif; other site 316407008488 hypothetical protein; Validated; Region: PRK03661 316407008489 murein hydrolase B; Provisional; Region: PRK10760 316407008490 lytic murein transglycosylase B; Region: MltB; TIGR02282 316407008491 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 316407008492 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407008493 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 316407008494 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 316407008495 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 316407008496 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 316407008497 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 316407008498 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 316407008499 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 316407008500 putative NAD(P) binding site [chemical binding]; other site 316407008501 active site 316407008502 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 316407008503 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 316407008504 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407008505 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407008506 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 316407008507 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 316407008508 putative active site [active] 316407008509 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 316407008510 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 316407008511 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407008512 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 316407008513 Walker A motif; other site 316407008514 ATP binding site [chemical binding]; other site 316407008515 Walker B motif; other site 316407008516 arginine finger; other site 316407008517 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 316407008518 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316407008519 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 316407008520 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 316407008521 iron binding site [ion binding]; other site 316407008522 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 316407008523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407008524 Acylphosphatase; Region: Acylphosphatase; pfam00708 316407008525 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 316407008526 HypF finger; Region: zf-HYPF; pfam07503 316407008527 HypF finger; Region: zf-HYPF; pfam07503 316407008528 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 316407008529 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 316407008530 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; cl19102 316407008531 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316407008532 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407008533 DNA binding site [nucleotide binding] 316407008534 domain linker motif; other site 316407008535 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 316407008536 dimerization interface (closed form) [polypeptide binding]; other site 316407008537 ligand binding site [chemical binding]; other site 316407008538 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 316407008539 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 316407008540 active site turn [active] 316407008541 phosphorylation site [posttranslational modification] 316407008542 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 316407008543 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 316407008544 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 316407008545 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 316407008546 nickel binding site [ion binding]; other site 316407008547 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 316407008548 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 316407008549 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 316407008550 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; cl19102 316407008551 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 316407008552 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 316407008553 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 316407008554 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 316407008555 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 316407008556 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 316407008557 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316407008558 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; cl19102 316407008559 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; cl19102 316407008560 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 316407008561 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 316407008562 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 316407008563 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316407008564 hydrogenase assembly chaperone; Provisional; Region: PRK10409 316407008565 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 316407008566 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 316407008567 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 316407008568 dimerization interface [polypeptide binding]; other site 316407008569 ATP binding site [chemical binding]; other site 316407008570 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 316407008571 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407008572 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407008573 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 316407008574 Walker A motif; other site 316407008575 ATP binding site [chemical binding]; other site 316407008576 Walker B motif; other site 316407008577 arginine finger; other site 316407008578 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 316407008579 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 316407008580 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 316407008581 MutS domain I; Region: MutS_I; pfam01624 316407008582 MutS domain II; Region: MutS_II; pfam05188 316407008583 MutS domain III; Region: MutS_III; pfam05192 316407008584 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 316407008585 Walker A/P-loop; other site 316407008586 ATP binding site [chemical binding]; other site 316407008587 Q-loop/lid; other site 316407008588 ABC transporter signature motif; other site 316407008589 Walker B; other site 316407008590 D-loop; other site 316407008591 H-loop/switch region; other site 316407008592 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 316407008593 active site 316407008594 metal binding site [ion binding]; metal-binding site 316407008595 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316407008596 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 316407008597 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407008598 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 316407008599 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 316407008600 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 316407008601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 316407008602 putative aldolase; Validated; Region: PRK08130 316407008603 intersubunit interface [polypeptide binding]; other site 316407008604 active site 316407008605 Zn2+ binding site [ion binding]; other site 316407008606 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 316407008607 hypothetical protein; Provisional; Region: PRK09989 316407008608 putative transporter; Provisional; Region: PRK09821 316407008609 GntP family permease; Region: GntP_permease; pfam02447 316407008610 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 316407008611 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316407008612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407008613 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316407008614 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 316407008615 DNA binding residues [nucleotide binding] 316407008616 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 316407008617 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407008618 Peptidase family M23; Region: Peptidase_M23; pfam01551 316407008619 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 316407008620 S-adenosylmethionine binding site [chemical binding]; other site 316407008621 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 316407008622 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 316407008623 Permutation of conserved domain; other site 316407008624 active site 316407008625 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 316407008626 homotrimer interaction site [polypeptide binding]; other site 316407008627 zinc binding site [ion binding]; other site 316407008628 CDP-binding sites; other site 316407008629 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 316407008630 substrate binding site; other site 316407008631 dimer interface; other site 316407008632 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 316407008633 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 316407008634 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 316407008635 ligand-binding site [chemical binding]; other site 316407008636 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 316407008637 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 316407008638 CysD dimerization site [polypeptide binding]; other site 316407008639 G1 box; other site 316407008640 putative GEF interaction site [polypeptide binding]; other site 316407008641 GTP/Mg2+ binding site [chemical binding]; other site 316407008642 Switch I region; other site 316407008643 G2 box; other site 316407008644 G3 box; other site 316407008645 Switch II region; other site 316407008646 G4 box; other site 316407008647 G5 box; other site 316407008648 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 316407008649 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 316407008650 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 316407008651 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 316407008652 Active Sites [active] 316407008653 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 316407008654 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 316407008655 metal binding site [ion binding]; metal-binding site 316407008656 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 316407008657 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 316407008658 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 316407008659 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 316407008660 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 316407008661 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 316407008662 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 316407008663 helicase Cas3; Provisional; Region: PRK09694 316407008664 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 316407008665 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 316407008666 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 316407008667 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 316407008668 Active Sites [active] 316407008669 sulfite reductase subunit beta; Provisional; Region: PRK13504 316407008670 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316407008671 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 316407008672 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316407008673 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; cl19102 316407008674 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 316407008675 Flavodoxin; Region: Flavodoxin_1; pfam00258 316407008676 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 316407008677 FAD binding pocket [chemical binding]; other site 316407008678 FAD binding motif [chemical binding]; other site 316407008679 catalytic residues [active] 316407008680 NAD binding pocket [chemical binding]; other site 316407008681 phosphate binding motif [ion binding]; other site 316407008682 beta-alpha-beta structure motif; other site 316407008683 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a...; Region: PTPS; cd00470 316407008684 homohexamer interface [polypeptide binding]; other site 316407008685 putative substrate stabilizing pore; other site 316407008686 pterin binding site; other site 316407008687 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407008688 putative oxidoreductase FixC; Provisional; Region: PRK10157 316407008689 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 316407008690 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 316407008691 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 316407008692 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 316407008693 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 316407008694 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 316407008695 Ligand binding site [chemical binding]; other site 316407008696 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 316407008697 benzoate transport; Region: 2A0115; TIGR00895 316407008698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008699 putative substrate translocation pore; other site 316407008700 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 316407008701 FAD binding domain; Region: FAD_binding_4; pfam01565 316407008702 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 316407008703 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 316407008704 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316407008705 NADP binding site [chemical binding]; other site 316407008706 homodimer interface [polypeptide binding]; other site 316407008707 active site 316407008708 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407008709 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008710 putative substrate translocation pore; other site 316407008711 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 316407008712 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316407008713 nucleotide binding site [chemical binding]; other site 316407008714 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 316407008715 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 316407008716 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 316407008717 enolase; Provisional; Region: eno; PRK00077 316407008718 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 316407008719 dimer interface [polypeptide binding]; other site 316407008720 metal binding site [ion binding]; metal-binding site 316407008721 substrate binding pocket [chemical binding]; other site 316407008722 CTP synthetase; Validated; Region: pyrG; PRK05380 316407008723 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 316407008724 Catalytic site [active] 316407008725 active site 316407008726 UTP binding site [chemical binding]; other site 316407008727 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 316407008728 active site 316407008729 putative oxyanion hole; other site 316407008730 catalytic triad [active] 316407008731 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 316407008732 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 316407008733 homodimer interface [polypeptide binding]; other site 316407008734 metal binding site [ion binding]; metal-binding site 316407008735 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 316407008736 homodimer interface [polypeptide binding]; other site 316407008737 active site 316407008738 putative chemical substrate binding site [chemical binding]; other site 316407008739 metal binding site [ion binding]; metal-binding site 316407008740 toxin MazF; Provisional; Region: PRK09907 316407008741 antitoxin MazE; Provisional; Region: PRK09798 316407008742 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 316407008743 HD domain; Region: HD_4; pfam13328 316407008744 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 316407008745 synthetase active site [active] 316407008746 NTP binding site [chemical binding]; other site 316407008747 metal binding site [ion binding]; metal-binding site 316407008748 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 316407008749 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 316407008750 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 316407008751 TRAM domain; Region: TRAM; pfam01938 316407008752 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 316407008753 S-adenosylmethionine binding site [chemical binding]; other site 316407008754 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 316407008755 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 316407008756 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 316407008757 dimerization interface [polypeptide binding]; other site 316407008758 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 316407008759 dimer interface [polypeptide binding]; other site 316407008760 phosphorylation site [posttranslational modification] 316407008761 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 316407008762 ATP binding site [chemical binding]; other site 316407008763 Mg2+ binding site [ion binding]; other site 316407008764 G-X-G motif; other site 316407008765 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 316407008766 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 316407008767 active site 316407008768 phosphorylation site [posttranslational modification] 316407008769 intermolecular recognition site; other site 316407008770 dimerization interface [polypeptide binding]; other site 316407008771 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 316407008772 putative binding surface; other site 316407008773 active site 316407008774 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 316407008775 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 316407008776 active site 316407008777 tetramer interface [polypeptide binding]; other site 316407008778 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 316407008779 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 316407008780 active site 316407008781 tetramer interface [polypeptide binding]; other site 316407008782 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008783 D-galactonate transporter; Region: 2A0114; TIGR00893 316407008784 putative substrate translocation pore; other site 316407008785 flavodoxin; Provisional; Region: PRK08105 316407008786 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 316407008787 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 316407008788 probable active site [active] 316407008789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 316407008790 SecY interacting protein Syd; Provisional; Region: PRK04968 316407008791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 316407008792 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 316407008793 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 316407008794 Domain of unknown function (DUF4478); Region: DUF4478; pfam14793 316407008795 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 316407008796 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 316407008797 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407008798 serine transporter; Region: stp; TIGR00814 316407008799 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 316407008800 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316407008801 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316407008802 flap endonuclease-like protein; Provisional; Region: PRK09482 316407008803 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316407008804 active site 316407008805 metal binding site 1 [ion binding]; metal-binding site 316407008806 putative 5' ssDNA interaction site; other site 316407008807 metal binding site 3; metal-binding site 316407008808 metal binding site 2 [ion binding]; metal-binding site 316407008809 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316407008810 putative DNA binding site [nucleotide binding]; other site 316407008811 putative metal binding site [ion binding]; other site 316407008812 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 316407008813 dimer interface [polypeptide binding]; other site 316407008814 active site 316407008815 metal binding site [ion binding]; metal-binding site 316407008816 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 316407008817 intersubunit interface [polypeptide binding]; other site 316407008818 active site 316407008819 Zn2+ binding site [ion binding]; other site 316407008820 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 316407008821 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008822 putative substrate translocation pore; other site 316407008823 L-fucose isomerase; Provisional; Region: fucI; PRK10991 316407008824 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 316407008825 hexamer (dimer of trimers) interface [polypeptide binding]; other site 316407008826 trimer interface [polypeptide binding]; other site 316407008827 substrate binding site [chemical binding]; other site 316407008828 Mn binding site [ion binding]; other site 316407008829 L-fuculokinase; Provisional; Region: PRK10331 316407008830 L-fuculose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_FK; cd07773 316407008831 putative N- and C-terminal domain interface [polypeptide binding]; other site 316407008832 putative active site [active] 316407008833 putative MgATP binding site [chemical binding]; other site 316407008834 putative catalytic site [active] 316407008835 metal binding site [ion binding]; metal-binding site 316407008836 putative carbohydrate binding site [chemical binding]; other site 316407008837 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 316407008838 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 316407008839 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407008840 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407008841 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 316407008842 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 316407008843 hypothetical protein; Provisional; Region: PRK10873 316407008844 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 316407008845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407008846 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 316407008847 dimerization interface [polypeptide binding]; other site 316407008848 substrate binding pocket [chemical binding]; other site 316407008849 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 316407008850 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 316407008851 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 316407008852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407008853 catalytic residue [active] 316407008854 CsdA-binding activator; Provisional; Region: PRK15019 316407008855 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 316407008856 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 316407008857 putative ATP binding site [chemical binding]; other site 316407008858 putative substrate interface [chemical binding]; other site 316407008859 murein transglycosylase A; Provisional; Region: mltA; PRK11162 316407008860 MltA specific insert domain; Region: MltA; smart00925 316407008861 3D domain; Region: 3D; pfam06725 316407008862 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 316407008863 AMIN domain; Region: AMIN; pfam11741 316407008864 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 316407008865 active site 316407008866 metal binding site [ion binding]; metal-binding site 316407008867 N-acetylglutamate synthase; Validated; Region: PRK05279 316407008868 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 316407008869 putative feedback inhibition sensing region; other site 316407008870 putative nucleotide binding site [chemical binding]; other site 316407008871 putative substrate binding site [chemical binding]; other site 316407008872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407008873 Coenzyme A binding pocket [chemical binding]; other site 316407008874 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 316407008875 Helicase; Region: Helicase_RecD; pfam05127 316407008876 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 316407008877 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 316407008878 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 316407008879 protease3; Provisional; Region: PRK15101 316407008880 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 316407008881 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316407008882 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316407008883 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 316407008884 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 316407008885 hypothetical protein; Provisional; Region: PRK10332 316407008886 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 316407008887 hypothetical protein; Provisional; Region: PRK11521 316407008888 hypothetical protein; Provisional; Region: PRK10557 316407008889 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316407008890 hypothetical protein; Provisional; Region: PRK10506 316407008891 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316407008892 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 316407008893 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 316407008894 dimerization interface [polypeptide binding]; other site 316407008895 active site 316407008896 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 316407008897 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 316407008898 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 316407008899 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 316407008900 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407008901 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316407008902 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 316407008903 putative active site [active] 316407008904 Ap4A binding site [chemical binding]; other site 316407008905 nudix motif; other site 316407008906 putative metal binding site [ion binding]; other site 316407008907 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 316407008908 putative DNA-binding cleft [nucleotide binding]; other site 316407008909 putative DNA clevage site; other site 316407008910 molecular lever; other site 316407008911 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 316407008912 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 316407008913 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 316407008914 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407008915 active site 316407008916 catalytic tetrad [active] 316407008917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008918 putative substrate translocation pore; other site 316407008919 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 316407008920 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316407008921 putative acyl-acceptor binding pocket; other site 316407008922 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 316407008923 acyl-activating enzyme (AAE) consensus motif; other site 316407008924 putative AMP binding site [chemical binding]; other site 316407008925 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 316407008926 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407008927 DNA binding site [nucleotide binding] 316407008928 domain linker motif; other site 316407008929 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 316407008930 dimerization interface (closed form) [polypeptide binding]; other site 316407008931 ligand binding site [chemical binding]; other site 316407008932 diaminopimelate decarboxylase; Provisional; Region: PRK11165 316407008933 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 316407008934 active site 316407008935 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407008936 substrate binding site [chemical binding]; other site 316407008937 catalytic residues [active] 316407008938 dimer interface [polypeptide binding]; other site 316407008939 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 316407008940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407008941 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 316407008942 putative dimerization interface [polypeptide binding]; other site 316407008943 putative racemase; Provisional; Region: PRK10200 316407008944 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 316407008945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407008946 putative substrate translocation pore; other site 316407008947 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 316407008948 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316407008949 NADP binding site [chemical binding]; other site 316407008950 homodimer interface [polypeptide binding]; other site 316407008951 active site 316407008952 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 316407008953 putative acyltransferase; Provisional; Region: PRK05790 316407008954 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 316407008955 dimer interface [polypeptide binding]; other site 316407008956 active site 316407008957 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407008958 serine transporter; Region: stp; TIGR00814 316407008959 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 316407008960 DNA binding residues [nucleotide binding] 316407008961 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 316407008962 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 316407008963 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 316407008964 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 316407008965 Tetratricopeptide repeat; Region: TPR_3; pfam07720 316407008966 Tetratricopeptide repeat; Region: TPR_3; pfam07720 316407008967 transcriptional regulator; Provisional; Region: PRK11906 316407008968 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 316407008969 DNA binding site [nucleotide binding] 316407008970 Tetratricopeptide repeat; Region: TPR_2; pfam07719 316407008971 ECK2852:JW5457:b2854; predicted peptidoglycan-binding enzyme 316407008972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316407008973 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 316407008974 DNA binding residues [nucleotide binding] 316407008975 dimerization interface [polypeptide binding]; other site 316407008976 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316407008977 invasion protein OrgB; Provisional; Region: PRK15322 316407008978 ECK2856:JW5460:b2858; hypothetical protein 316407008979 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 316407008980 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407008981 HTH-like domain; Region: HTH_21; pfam13276 316407008982 Integrase core domain; Region: rve; pfam00665 316407008983 Integrase core domain; Region: rve_3; pfam13683 316407008984 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407008985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407008986 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 316407008987 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 316407008988 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 316407008989 Peptidase family M23; Region: Peptidase_M23; pfam01551 316407008990 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 316407008991 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316407008992 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316407008993 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 316407008994 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 316407008995 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316407008996 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 316407008997 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 316407008998 catalytic loop [active] 316407008999 iron binding site [ion binding]; other site 316407009000 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316407009001 GAF domain; Region: GAF; cl17456 316407009002 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 316407009003 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 316407009004 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 316407009005 Walker A motif; other site 316407009006 ATP binding site [chemical binding]; other site 316407009007 Walker B motif; other site 316407009008 arginine finger; other site 316407009009 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407009010 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 316407009011 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316407009012 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316407009013 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 316407009014 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407009015 catalytic residue [active] 316407009016 peptidase; Reviewed; Region: PRK13004 316407009017 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 316407009018 putative metal binding site [ion binding]; other site 316407009019 putative dimer interface [polypeptide binding]; other site 316407009020 D-hydantoinase; Region: D-hydantoinase; TIGR02033 316407009021 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 316407009022 tetramer interface [polypeptide binding]; other site 316407009023 active site 316407009024 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 316407009025 putative substrate binding site [chemical binding]; other site 316407009026 nucleotide binding site [chemical binding]; other site 316407009027 nucleotide binding site [chemical binding]; other site 316407009028 homodimer interface [polypeptide binding]; other site 316407009029 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 316407009030 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 316407009031 XdhC Rossmann domain; Region: XdhC_C; pfam13478 316407009032 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 316407009033 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 316407009034 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; cd01983 316407009035 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 316407009036 Ligand binding site; other site 316407009037 metal-binding site 316407009038 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 316407009039 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 316407009040 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; cl19102 316407009041 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407009042 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 316407009043 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 316407009044 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 316407009045 active site 316407009046 putative substrate binding pocket [chemical binding]; other site 316407009047 FAD binding domain; Region: FAD_binding_4; cl19922 316407009048 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 316407009049 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 316407009050 probable selenate reductase, molybdenum-binding subunit; Region: Se_sel_red_Mo; TIGR03313 316407009051 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 316407009052 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 316407009053 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 316407009054 uracil-xanthine permease; Region: ncs2; TIGR00801 316407009055 Sulfate transporter family; Region: Sulfate_transp; cl19250 316407009056 guanine deaminase; Provisional; Region: PRK09228 316407009057 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 316407009058 active site 316407009059 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316407009060 Sulfate transporter family; Region: Sulfate_transp; cl19250 316407009061 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316407009062 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; cl19102 316407009063 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 316407009064 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; cl19102 316407009065 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 316407009066 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 316407009067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 316407009068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407009069 Sulfate transporter family; Region: Sulfate_transp; cl19250 316407009070 xanthine permease; Region: pbuX; TIGR03173 316407009071 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 316407009072 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 316407009073 active site 316407009074 metal binding site [ion binding]; metal-binding site 316407009075 nudix motif; other site 316407009076 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 316407009077 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 316407009078 dimer interface [polypeptide binding]; other site 316407009079 putative anticodon binding site; other site 316407009080 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 316407009081 motif 1; other site 316407009082 active site 316407009083 motif 2; other site 316407009084 motif 3; other site 316407009085 peptide chain release factor 2; Validated; Region: prfB; PRK00578 316407009086 This domain is found in peptide chain release factors; Region: PCRF; smart00937 316407009087 RF-1 domain; Region: RF-1; pfam00472 316407009088 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 316407009089 DHH family; Region: DHH; pfam01368 316407009090 DHHA1 domain; Region: DHHA1; pfam02272 316407009091 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 316407009092 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 316407009093 dimerization domain [polypeptide binding]; other site 316407009094 dimer interface [polypeptide binding]; other site 316407009095 catalytic residues [active] 316407009096 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 316407009097 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 316407009098 active site 316407009099 Int/Topo IB signature motif; other site 316407009100 flavodoxin FldB; Provisional; Region: PRK12359 316407009101 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 316407009102 hypothetical protein; Provisional; Region: PRK10878 316407009103 putative global regulator; Reviewed; Region: PRK09559 316407009104 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 316407009105 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 316407009106 hemolysin; Provisional; Region: PRK15087 316407009107 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 316407009108 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 316407009109 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 316407009110 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 316407009111 classical (c) SDRs; Region: SDR_c; cd05233 316407009112 NAD(P) binding site [chemical binding]; other site 316407009113 active site 316407009114 glycine dehydrogenase; Provisional; Region: PRK05367 316407009115 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 316407009116 tetramer interface [polypeptide binding]; other site 316407009117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009118 catalytic residue [active] 316407009119 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 316407009120 tetramer interface [polypeptide binding]; other site 316407009121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009122 catalytic residue [active] 316407009123 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 316407009124 lipoyl attachment site [posttranslational modification]; other site 316407009125 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 316407009126 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 316407009127 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 316407009128 oxidoreductase; Provisional; Region: PRK08013 316407009129 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 316407009130 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 316407009131 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 316407009132 proline aminopeptidase P II; Provisional; Region: PRK10879 316407009133 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 316407009134 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 316407009135 active site 316407009136 hypothetical protein; Reviewed; Region: PRK01736 316407009137 Z-ring-associated protein; Provisional; Region: PRK10972 316407009138 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 316407009139 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 316407009140 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 316407009141 ligand binding site [chemical binding]; other site 316407009142 NAD binding site [chemical binding]; other site 316407009143 tetramer interface [polypeptide binding]; other site 316407009144 catalytic site [active] 316407009145 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 316407009146 L-serine binding site [chemical binding]; other site 316407009147 ACT domain interface; other site 316407009148 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 316407009149 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316407009150 active site 316407009151 dimer interface [polypeptide binding]; other site 316407009152 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 316407009153 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 316407009154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407009155 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 316407009156 putative dimerization interface [polypeptide binding]; other site 316407009157 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 316407009158 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 316407009159 active site 316407009160 substrate binding site [chemical binding]; other site 316407009161 coenzyme B12 binding site [chemical binding]; other site 316407009162 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 316407009163 B12 binding site [chemical binding]; other site 316407009164 cobalt ligand [ion binding]; other site 316407009165 LAO/AO transport system ATPase; Region: lao; TIGR00750 316407009166 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 316407009167 Walker A; other site 316407009168 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 316407009169 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 316407009170 substrate binding site [chemical binding]; other site 316407009171 oxyanion hole (OAH) forming residues; other site 316407009172 trimer interface [polypeptide binding]; other site 316407009173 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 316407009174 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 316407009175 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 316407009176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407009177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407009178 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 316407009179 dimerization interface [polypeptide binding]; other site 316407009180 oxidative stress defense protein; Provisional; Region: PRK11087 316407009181 arginine exporter protein; Provisional; Region: PRK09304 316407009182 mechanosensitive channel MscS; Provisional; Region: PRK10334 316407009183 Conserved TM helix; Region: TM_helix; pfam05552 316407009184 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407009185 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 316407009186 active site 316407009187 intersubunit interface [polypeptide binding]; other site 316407009188 zinc binding site [ion binding]; other site 316407009189 Na+ binding site [ion binding]; other site 316407009190 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 316407009191 substrate binding site [chemical binding]; other site 316407009192 hinge regions; other site 316407009193 ADP binding site [chemical binding]; other site 316407009194 catalytic site [active] 316407009195 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 316407009196 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 316407009197 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 316407009198 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 316407009199 active site 316407009200 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 316407009201 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 316407009202 putative active site [active] 316407009203 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 316407009204 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407009205 putative NAD(P) binding site [chemical binding]; other site 316407009206 catalytic Zn binding site [ion binding]; other site 316407009207 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 316407009208 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 316407009209 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 316407009210 active site 316407009211 P-loop; other site 316407009212 phosphorylation site [posttranslational modification] 316407009213 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 316407009214 active site 316407009215 phosphorylation site [posttranslational modification] 316407009216 transketolase; Reviewed; Region: PRK12753 316407009217 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 316407009218 TPP-binding site [chemical binding]; other site 316407009219 dimer interface [polypeptide binding]; other site 316407009220 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 316407009221 PYR/PP interface [polypeptide binding]; other site 316407009222 dimer interface [polypeptide binding]; other site 316407009223 TPP binding site [chemical binding]; other site 316407009224 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 316407009225 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 316407009226 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 316407009227 oligomer interface [polypeptide binding]; other site 316407009228 putative active site [active] 316407009229 Mn binding site [ion binding]; other site 316407009230 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 316407009231 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 316407009232 dimer interface [polypeptide binding]; other site 316407009233 active site 316407009234 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407009235 catalytic residues [active] 316407009236 substrate binding site [chemical binding]; other site 316407009237 Virulence promoting factor; Region: YqgB; pfam11036 316407009238 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 316407009239 S-adenosylmethionine synthetase; Validated; Region: PRK05250 316407009240 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 316407009241 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 316407009242 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 316407009243 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 316407009244 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407009245 putative substrate translocation pore; other site 316407009246 hypothetical protein; Provisional; Region: PRK04860 316407009247 DNA-specific endonuclease I; Provisional; Region: PRK15137 316407009248 RNA methyltransferase, RsmE family; Region: TIGR00046 316407009249 glutathione synthetase; Provisional; Region: PRK05246 316407009250 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 316407009251 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 316407009252 hypothetical protein; Validated; Region: PRK00228 316407009253 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 316407009254 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 316407009255 Walker A motif; other site 316407009256 ATP binding site [chemical binding]; other site 316407009257 Walker B motif; other site 316407009258 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 316407009259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407009260 catalytic residue [active] 316407009261 YGGT family; Region: YGGT; pfam02325 316407009262 Predicted integral membrane protein [Function unknown]; Region: COG0762 316407009263 hypothetical protein; Validated; Region: PRK05090 316407009264 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 316407009265 active site 316407009266 dimerization interface [polypeptide binding]; other site 316407009267 HemN family oxidoreductase; Provisional; Region: PRK05660 316407009268 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 316407009269 FeS/SAM binding site; other site 316407009270 HemN C-terminal domain; Region: HemN_C; pfam06969 316407009271 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 316407009272 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 316407009273 active site 316407009274 homodimer interface [polypeptide binding]; other site 316407009275 hypothetical protein; Provisional; Region: PRK10626 316407009276 hypothetical protein; Provisional; Region: PRK11702 316407009277 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 316407009278 adenine DNA glycosylase; Provisional; Region: PRK10880 316407009279 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 316407009280 minor groove reading motif; other site 316407009281 helix-hairpin-helix signature motif; other site 316407009282 substrate binding pocket [chemical binding]; other site 316407009283 active site 316407009284 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 316407009285 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 316407009286 DNA binding and oxoG recognition site [nucleotide binding] 316407009287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2924 316407009288 murein transglycosylase C; Provisional; Region: mltC; PRK11671 316407009289 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 316407009290 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 316407009291 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407009292 catalytic residue [active] 316407009293 nucleoside transporter; Region: 2A0110; TIGR00889 316407009294 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 316407009295 ornithine decarboxylase; Provisional; Region: PRK13578 316407009296 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316407009297 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 316407009298 homodimer interface [polypeptide binding]; other site 316407009299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009300 catalytic residue [active] 316407009301 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316407009302 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 316407009303 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 316407009304 'ECK2964:JW5924:b2969; predicted secretion pathway protein, L-type protein' 316407009305 putative type II secretion protein GspC; Provisional; Region: PRK09681 316407009306 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 316407009307 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 316407009308 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 316407009309 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 316407009310 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 316407009311 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 316407009312 Peptidase M60-like family; Region: M60-like; pfam13402 316407009313 glycolate transporter; Provisional; Region: PRK09695 316407009314 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 316407009315 active site 316407009316 hypothetical protein; Provisional; Region: PRK09732 316407009317 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 316407009318 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407009319 Cysteine-rich domain; Region: CCG; pfam02754 316407009320 Cysteine-rich domain; Region: CCG; pfam02754 316407009321 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 316407009322 FAD binding domain; Region: FAD_binding_4; cl19922 316407009323 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 316407009324 FAD binding domain; Region: FAD_binding_4; pfam01565 316407009325 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 316407009326 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 316407009327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407009328 DNA-binding site [nucleotide binding]; DNA binding site 316407009329 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407009330 Transposase domain (DUF772); Region: DUF772; pfam05598 316407009331 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407009332 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407009333 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407009334 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316407009335 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 316407009336 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316407009337 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 316407009338 active site 316407009339 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 316407009340 TMP-binding site; other site 316407009341 ATP-binding site [chemical binding]; other site 316407009342 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316407009343 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 316407009344 TMP-binding site; other site 316407009345 ATP-binding site [chemical binding]; other site 316407009346 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316407009347 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 316407009348 CHAP domain; Region: CHAP; pfam05257 316407009349 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316407009350 putative S-transferase; Provisional; Region: PRK11752 316407009351 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 316407009352 C-terminal domain interface [polypeptide binding]; other site 316407009353 GSH binding site (G-site) [chemical binding]; other site 316407009354 dimer interface [polypeptide binding]; other site 316407009355 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 316407009356 dimer interface [polypeptide binding]; other site 316407009357 N-terminal domain interface [polypeptide binding]; other site 316407009358 active site 316407009359 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 316407009360 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 316407009361 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 316407009362 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 316407009363 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 316407009364 putative substrate-binding site; other site 316407009365 nickel binding site [ion binding]; other site 316407009366 hydrogenase 2 large subunit; Provisional; Region: PRK10467 316407009367 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 316407009368 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 316407009369 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407009370 hydrogenase 2 small subunit; Provisional; Region: PRK10468 316407009371 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 316407009372 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 316407009373 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 316407009374 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 316407009375 ECK2993:JW5926:b2999; predicted hydrolase 316407009376 ECK2994:JW5496:b3000; predicted dienlactone hydrolase 316407009377 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 316407009378 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 316407009379 active site 316407009380 catalytic tetrad [active] 316407009381 hypothetical protein; Provisional; Region: PRK05208 316407009382 oxidoreductase; Provisional; Region: PRK07985 316407009383 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 316407009384 NAD binding site [chemical binding]; other site 316407009385 metal binding site [ion binding]; metal-binding site 316407009386 active site 316407009387 biopolymer transport protein ExbD; Provisional; Region: PRK11267 316407009388 biopolymer transport protein ExbB; Provisional; Region: PRK10414 316407009389 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 316407009390 homodimer interface [polypeptide binding]; other site 316407009391 substrate-cofactor binding pocket; other site 316407009392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009393 catalytic residue [active] 316407009394 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316407009395 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 316407009396 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 316407009397 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407009398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407009399 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 316407009400 dimer interface [polypeptide binding]; other site 316407009401 active site 316407009402 metal binding site [ion binding]; metal-binding site 316407009403 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 316407009404 active site 316407009405 catalytic tetrad [active] 316407009406 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 316407009407 putative outer membrane lipoprotein; Provisional; Region: PRK09973 316407009408 hypothetical protein; Provisional; Region: PRK01254 316407009409 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 316407009410 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 316407009411 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 316407009412 FtsI repressor; Provisional; Region: PRK10883 316407009413 The first Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_1_CueO_FtsP; cd04232 316407009414 Domain 2 interface [polypeptide binding]; other site 316407009415 Domain 3 interface [polypeptide binding]; other site 316407009416 trinuclear Cu binding site [ion binding]; other site 316407009417 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 316407009418 Domain 1 interface [polypeptide binding]; other site 316407009419 Domain 3 interface [polypeptide binding]; other site 316407009420 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 316407009421 Domain 2 interface [polypeptide binding]; other site 316407009422 Domain 1 interface [polypeptide binding]; other site 316407009423 Type 1 (T1) Cu binding site [ion binding]; other site 316407009424 trinuclear Cu binding site [ion binding]; other site 316407009425 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 316407009426 putative acyl-acceptor binding pocket; other site 316407009427 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 316407009428 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 316407009429 CAP-like domain; other site 316407009430 active site 316407009431 primary dimer interface [polypeptide binding]; other site 316407009432 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 316407009433 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 316407009434 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 316407009435 peptide binding site [polypeptide binding]; other site 316407009436 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 316407009437 toxin interface [polypeptide binding]; other site 316407009438 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 316407009439 Zn binding site [ion binding]; other site 316407009440 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 316407009441 non-specific DNA binding site [nucleotide binding]; other site 316407009442 salt bridge; other site 316407009443 sequence-specific DNA binding site [nucleotide binding]; other site 316407009444 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 316407009445 peptide binding site [polypeptide binding]; other site 316407009446 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 316407009447 TIGR00156 family protein; Region: TIGR00156 316407009448 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 316407009449 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 316407009450 active site 316407009451 phosphorylation site [posttranslational modification] 316407009452 intermolecular recognition site; other site 316407009453 dimerization interface [polypeptide binding]; other site 316407009454 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 316407009455 DNA binding site [nucleotide binding] 316407009456 sensor protein QseC; Provisional; Region: PRK10337 316407009457 HAMP domain; Region: HAMP; pfam00672 316407009458 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 316407009459 dimer interface [polypeptide binding]; other site 316407009460 phosphorylation site [posttranslational modification] 316407009461 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 316407009462 ATP binding site [chemical binding]; other site 316407009463 Mg2+ binding site [ion binding]; other site 316407009464 G-X-G motif; other site 316407009465 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 316407009466 Uncharacterized conserved protein [Function unknown]; Region: COG1359 316407009467 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 316407009468 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 316407009469 ATP binding site [chemical binding]; other site 316407009470 Mg2+ binding site [ion binding]; other site 316407009471 G-X-G motif; other site 316407009472 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 316407009473 anchoring element; other site 316407009474 dimer interface [polypeptide binding]; other site 316407009475 ATP binding site [chemical binding]; other site 316407009476 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 316407009477 active site 316407009478 metal binding site [ion binding]; metal-binding site 316407009479 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316407009480 esterase YqiA; Provisional; Region: PRK11071 316407009481 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316407009482 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 316407009483 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 316407009484 active site 316407009485 metal binding site [ion binding]; metal-binding site 316407009486 hexamer interface [polypeptide binding]; other site 316407009487 putative dehydrogenase; Provisional; Region: PRK11039 316407009488 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 316407009489 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 316407009490 dimer interface [polypeptide binding]; other site 316407009491 ADP-ribose binding site [chemical binding]; other site 316407009492 active site 316407009493 nudix motif; other site 316407009494 metal binding site [ion binding]; metal-binding site 316407009495 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 316407009496 Outer membrane efflux protein; Region: OEP; pfam02321 316407009497 Outer membrane efflux protein; Region: OEP; pfam02321 316407009498 hypothetical protein; Provisional; Region: PRK11653 316407009499 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316407009500 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 316407009501 putative active site [active] 316407009502 metal binding site [ion binding]; metal-binding site 316407009503 zinc transporter ZupT; Provisional; Region: PRK04201 316407009504 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 316407009505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 316407009506 putative fimbrial protein; Provisional; Region: PRK09733 316407009507 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407009508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407009509 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407009510 HTH-like domain; Region: HTH_21; pfam13276 316407009511 Integrase core domain; Region: rve; pfam00665 316407009512 Integrase core domain; Region: rve_3; pfam13683 316407009513 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316407009514 PapC N-terminal domain; Region: PapC_N; pfam13954 316407009515 Outer membrane usher protein; Region: Usher; pfam00577 316407009516 PapC C-terminal domain; Region: PapC_C; pfam13953 316407009517 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316407009518 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407009519 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407009520 Fimbrial protein; Region: Fimbrial; pfam00419 316407009521 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 316407009522 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 316407009523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 316407009524 Flotillin or reggie family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_flotillin; cd03399 316407009525 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 316407009526 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 316407009527 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 316407009528 putative ribose interaction site [chemical binding]; other site 316407009529 putative ADP binding site [chemical binding]; other site 316407009530 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 316407009531 active site 316407009532 nucleotide binding site [chemical binding]; other site 316407009533 HIGH motif; other site 316407009534 KMSKS motif; other site 316407009535 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 316407009536 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316407009537 metal binding triad; other site 316407009538 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 316407009539 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 316407009540 metal binding triad; other site 316407009541 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 316407009542 Uncharacterized conserved protein [Function unknown]; Region: COG3025 316407009543 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 316407009544 putative active site [active] 316407009545 putative metal binding residues [ion binding]; other site 316407009546 signature motif; other site 316407009547 putative triphosphate binding site [ion binding]; other site 316407009548 CHAD domain; Region: CHAD; pfam05235 316407009549 SH3 domain-containing protein; Provisional; Region: PRK10884 316407009550 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 316407009551 Bacterial SH3 domain homologues; Region: SH3b; smart00287 316407009552 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 316407009553 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 316407009554 active site 316407009555 NTP binding site [chemical binding]; other site 316407009556 metal binding triad [ion binding]; metal-binding site 316407009557 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 316407009558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407009559 Zn2+ binding site [ion binding]; other site 316407009560 Mg2+ binding site [ion binding]; other site 316407009561 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 316407009562 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 316407009563 homooctamer interface [polypeptide binding]; other site 316407009564 active site 316407009565 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 316407009566 transcriptional activator TtdR; Provisional; Region: PRK09801 316407009567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407009568 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 316407009569 putative effector binding pocket; other site 316407009570 putative dimerization interface [polypeptide binding]; other site 316407009571 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 316407009572 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 316407009573 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 316407009574 anion transporter; Region: dass; TIGR00785 316407009575 transmembrane helices; other site 316407009576 UGMP family protein; Validated; Region: PRK09604 316407009577 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407009578 nucleotide binding site [chemical binding]; other site 316407009579 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 316407009580 DNA primase; Validated; Region: dnaG; PRK05667 316407009581 CHC2 zinc finger; Region: zf-CHC2; pfam01807 316407009582 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 316407009583 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 316407009584 active site 316407009585 metal binding site [ion binding]; metal-binding site 316407009586 interdomain interaction site; other site 316407009587 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 316407009588 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 316407009589 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 316407009590 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 316407009591 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 316407009592 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 316407009593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407009594 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 316407009595 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 316407009596 DNA binding residues [nucleotide binding] 316407009597 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 316407009598 active site 316407009599 SUMO-1 interface [polypeptide binding]; other site 316407009600 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 316407009601 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 316407009602 FAD binding pocket [chemical binding]; other site 316407009603 FAD binding motif [chemical binding]; other site 316407009604 phosphate binding motif [ion binding]; other site 316407009605 NAD binding pocket [chemical binding]; other site 316407009606 Predicted transcriptional regulators [Transcription]; Region: COG1695 316407009607 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 316407009608 PAS fold; Region: PAS_3; pfam08447 316407009609 putative active site [active] 316407009610 heme pocket [chemical binding]; other site 316407009611 HAMP domain; Region: HAMP; pfam00672 316407009612 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 316407009613 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316407009614 dimer interface [polypeptide binding]; other site 316407009615 putative CheW interface [polypeptide binding]; other site 316407009616 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 316407009617 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407009618 inhibitor-cofactor binding pocket; inhibition site 316407009619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009620 catalytic residue [active] 316407009621 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 316407009622 dimer interface [polypeptide binding]; other site 316407009623 putative tRNA-binding site [nucleotide binding]; other site 316407009624 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 316407009625 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407009626 DNA binding site [nucleotide binding] 316407009627 domain linker motif; other site 316407009628 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 316407009629 putative dimerization interface [polypeptide binding]; other site 316407009630 putative ligand binding site [chemical binding]; other site 316407009631 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 316407009632 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 316407009633 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 316407009634 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 316407009635 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 316407009636 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 316407009637 inner membrane transporter YjeM; Provisional; Region: PRK15238 316407009638 alpha-glucosidase; Provisional; Region: PRK10137 316407009639 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 316407009640 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 316407009641 active site 316407009642 FMN binding site [chemical binding]; other site 316407009643 2,4-decadienoyl-CoA binding site; other site 316407009644 catalytic residue [active] 316407009645 4Fe-4S cluster binding site [ion binding]; other site 316407009646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407009647 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 316407009648 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 316407009649 non-specific DNA binding site [nucleotide binding]; other site 316407009650 salt bridge; other site 316407009651 sequence-specific DNA binding site [nucleotide binding]; other site 316407009652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 316407009653 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 316407009654 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 316407009655 S-adenosylmethionine binding site [chemical binding]; other site 316407009656 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 316407009657 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 316407009658 putative active site [active] 316407009659 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316407009660 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407009661 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407009662 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 316407009663 serine/threonine transporter SstT; Provisional; Region: PRK13628 316407009664 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 316407009665 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 316407009666 galactarate dehydratase; Region: galactar-dH20; TIGR03248 316407009667 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 316407009668 glucuronate isomerase; Reviewed; Region: PRK02925 316407009669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407009670 D-galactonate transporter; Region: 2A0114; TIGR00893 316407009671 putative substrate translocation pore; other site 316407009672 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 316407009673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407009674 DNA-binding site [nucleotide binding]; DNA binding site 316407009675 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407009676 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 316407009677 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 316407009678 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 316407009679 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 316407009680 Predicted membrane protein [Function unknown]; Region: COG5393 316407009681 YqjK-like protein; Region: YqjK; pfam13997 316407009682 Predicted membrane protein [Function unknown]; Region: COG2259 316407009683 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 316407009684 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 316407009685 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 316407009686 putative dimer interface [polypeptide binding]; other site 316407009687 N-terminal domain interface [polypeptide binding]; other site 316407009688 putative substrate binding pocket (H-site) [chemical binding]; other site 316407009689 Predicted membrane protein [Function unknown]; Region: COG3152 316407009690 Predicted membrane protein [Function unknown]; Region: COG3152 316407009691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407009692 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 316407009693 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 316407009694 dimerization interface [polypeptide binding]; other site 316407009695 Pirin-related protein [General function prediction only]; Region: COG1741 316407009696 Pirin; Region: Pirin; pfam02678 316407009697 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 316407009698 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407009699 serine transporter; Region: stp; TIGR00814 316407009700 L-serine dehydratase TdcG; Provisional; Region: PRK15040 316407009701 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 316407009702 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 316407009703 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 316407009704 homotrimer interaction site [polypeptide binding]; other site 316407009705 putative active site [active] 316407009706 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 316407009707 Pyruvate formate lyase 1; Region: PFL1; cd01678 316407009708 coenzyme A binding site [chemical binding]; other site 316407009709 active site 316407009710 catalytic residues [active] 316407009711 glycine loop; other site 316407009712 Transposase domain (DUF772); Region: DUF772; pfam05598 316407009713 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407009714 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407009715 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407009716 propionate/acetate kinase; Provisional; Region: PRK12379 316407009717 threonine/serine transporter TdcC; Provisional; Region: PRK13629 316407009718 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407009719 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 316407009720 tetramer interface [polypeptide binding]; other site 316407009721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407009722 catalytic residue [active] 316407009723 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 316407009724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407009725 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 316407009726 putative substrate binding pocket [chemical binding]; other site 316407009727 putative dimerization interface [polypeptide binding]; other site 316407009728 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 316407009729 hypothetical protein; Provisional; Region: PRK09716 316407009730 glycerate kinase I; Provisional; Region: PRK10342 316407009731 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 316407009732 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 316407009733 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 316407009734 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 316407009735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407009736 D-galactonate transporter; Region: 2A0114; TIGR00893 316407009737 putative substrate translocation pore; other site 316407009738 galactarate dehydratase; Region: galactar-dH20; TIGR03248 316407009739 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 316407009740 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 316407009741 putative regulator PrlF; Provisional; Region: PRK09974 316407009742 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 316407009743 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 316407009744 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407009745 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407009746 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 316407009747 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 316407009748 active site 316407009749 phosphorylation site [posttranslational modification] 316407009750 'ECK3122:JW3103:b3134; N-acetylgalactosamine-specific enzyme IIC component of PTS, fragment' 316407009751 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 316407009752 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 316407009753 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 316407009754 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 316407009755 dimer interface [polypeptide binding]; other site 316407009756 active site 316407009757 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 316407009758 putative active site [active] 316407009759 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 316407009760 active site 316407009761 intersubunit interface [polypeptide binding]; other site 316407009762 zinc binding site [ion binding]; other site 316407009763 Na+ binding site [ion binding]; other site 316407009764 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 316407009765 active site 316407009766 phosphorylation site [posttranslational modification] 316407009767 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 316407009768 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 316407009769 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 316407009770 active site 316407009771 trimer interface [polypeptide binding]; other site 316407009772 allosteric site; other site 316407009773 active site lid [active] 316407009774 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407009775 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 316407009776 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407009777 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407009778 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316407009779 PapC N-terminal domain; Region: PapC_N; pfam13954 316407009780 Outer membrane usher protein; Region: Usher; pfam00577 316407009781 PapC C-terminal domain; Region: PapC_C; pfam13953 316407009782 Fimbrial protein; Region: Fimbrial; cl01416 316407009783 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 316407009784 putative SAM binding site [chemical binding]; other site 316407009785 putative homodimer interface [polypeptide binding]; other site 316407009786 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 316407009787 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 316407009788 putative ligand binding site [chemical binding]; other site 316407009789 TIGR00252 family protein; Region: TIGR00252 316407009790 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 316407009791 dimer interface [polypeptide binding]; other site 316407009792 active site 316407009793 outer membrane lipoprotein; Provisional; Region: PRK11023 316407009794 BON domain; Region: BON; pfam04972 316407009795 BON domain; Region: BON; pfam04972 316407009796 Predicted permease; Region: DUF318; pfam03773 316407009797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 316407009798 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 316407009799 NAD(P) binding site [chemical binding]; other site 316407009800 active site 316407009801 intracellular protease, PfpI family; Region: PfpI; TIGR01382 316407009802 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 316407009803 proposed catalytic triad [active] 316407009804 conserved cys residue [active] 316407009805 hypothetical protein; Provisional; Region: PRK03467 316407009806 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 316407009807 GIY-YIG motif/motif A; other site 316407009808 putative active site [active] 316407009809 putative metal binding site [ion binding]; other site 316407009810 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316407009811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407009812 Coenzyme A binding pocket [chemical binding]; other site 316407009813 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 316407009814 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 316407009815 putative protease; Provisional; Region: PRK15447 316407009816 hypothetical protein; Provisional; Region: PRK10508 316407009817 tryptophan permease; Provisional; Region: PRK10483 316407009818 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407009819 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 316407009820 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 316407009821 ATP binding site [chemical binding]; other site 316407009822 Mg++ binding site [ion binding]; other site 316407009823 motif III; other site 316407009824 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 316407009825 nucleotide binding region [chemical binding]; other site 316407009826 ATP-binding site [chemical binding]; other site 316407009827 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 316407009828 putative RNA binding site [nucleotide binding]; other site 316407009829 lipoprotein NlpI; Provisional; Region: PRK11189 316407009830 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 316407009831 binding surface 316407009832 TPR motif; other site 316407009833 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 316407009834 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 316407009835 RNase E interface [polypeptide binding]; other site 316407009836 trimer interface [polypeptide binding]; other site 316407009837 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 316407009838 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 316407009839 RNase E interface [polypeptide binding]; other site 316407009840 trimer interface [polypeptide binding]; other site 316407009841 active site 316407009842 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 316407009843 putative nucleic acid binding region [nucleotide binding]; other site 316407009844 G-X-X-G motif; other site 316407009845 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 316407009846 RNA binding site [nucleotide binding]; other site 316407009847 domain interface; other site 316407009848 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 316407009849 16S/18S rRNA binding site [nucleotide binding]; other site 316407009850 S13e-L30e interaction site [polypeptide binding]; other site 316407009851 25S rRNA binding site [nucleotide binding]; other site 316407009852 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 316407009853 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 316407009854 RNA binding site [nucleotide binding]; other site 316407009855 active site 316407009856 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 316407009857 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 316407009858 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316407009859 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 316407009860 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 316407009861 translation initiation factor IF-2; Validated; Region: infB; PRK05306 316407009862 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 316407009863 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 316407009864 G1 box; other site 316407009865 putative GEF interaction site [polypeptide binding]; other site 316407009866 GTP/Mg2+ binding site [chemical binding]; other site 316407009867 Switch I region; other site 316407009868 G2 box; other site 316407009869 G3 box; other site 316407009870 Switch II region; other site 316407009871 G4 box; other site 316407009872 G5 box; other site 316407009873 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 316407009874 Translation-initiation factor 2; Region: IF-2; pfam11987 316407009875 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 316407009876 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 316407009877 NusA N-terminal domain; Region: NusA_N; pfam08529 316407009878 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 316407009879 RNA binding site [nucleotide binding]; other site 316407009880 homodimer interface [polypeptide binding]; other site 316407009881 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 316407009882 G-X-X-G motif; other site 316407009883 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 316407009884 G-X-X-G motif; other site 316407009885 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316407009886 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 316407009887 hypothetical protein; Provisional; Region: PRK14641 316407009888 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 316407009889 putative oligomer interface [polypeptide binding]; other site 316407009890 putative RNA binding site [nucleotide binding]; other site 316407009891 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 316407009892 ANP binding site [chemical binding]; other site 316407009893 Substrate Binding Site II [chemical binding]; other site 316407009894 Substrate Binding Site I [chemical binding]; other site 316407009895 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 316407009896 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 316407009897 Sulfatase; Region: Sulfatase; pfam00884 316407009898 Preprotein translocase SecG subunit; Region: SecG; pfam03840 316407009899 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 316407009900 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 316407009901 active site 316407009902 substrate binding site [chemical binding]; other site 316407009903 metal binding site [ion binding]; metal-binding site 316407009904 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 316407009905 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 316407009906 substrate binding pocket [chemical binding]; other site 316407009907 dimer interface [polypeptide binding]; other site 316407009908 inhibitor binding site; inhibition site 316407009909 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 316407009910 FtsH Extracellular; Region: FtsH_ext; pfam06480 316407009911 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 316407009912 Walker A motif; other site 316407009913 ATP binding site [chemical binding]; other site 316407009914 Walker B motif; other site 316407009915 arginine finger; other site 316407009916 Peptidase family M41; Region: Peptidase_M41; pfam01434 316407009917 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 316407009918 S-adenosylmethionine binding site [chemical binding]; other site 316407009919 RNA-binding protein YhbY; Provisional; Region: PRK10343 316407009920 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 316407009921 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316407009922 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316407009923 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 316407009924 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 316407009925 GTPase CgtA; Reviewed; Region: obgE; PRK12298 316407009926 GTP1/OBG; Region: GTP1_OBG; pfam01018 316407009927 Obg GTPase; Region: Obg; cd01898 316407009928 G1 box; other site 316407009929 GTP/Mg2+ binding site [chemical binding]; other site 316407009930 Switch I region; other site 316407009931 G2 box; other site 316407009932 G3 box; other site 316407009933 Switch II region; other site 316407009934 G4 box; other site 316407009935 G5 box; other site 316407009936 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316407009937 EamA-like transporter family; Region: EamA; pfam00892 316407009938 EamA-like transporter family; Region: EamA; pfam00892 316407009939 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 316407009940 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 316407009941 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 316407009942 substrate binding pocket [chemical binding]; other site 316407009943 chain length determination region; other site 316407009944 substrate-Mg2+ binding site; other site 316407009945 catalytic residues [active] 316407009946 aspartate-rich region 1; other site 316407009947 active site lid residues [active] 316407009948 aspartate-rich region 2; other site 316407009949 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 316407009950 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 316407009951 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 316407009952 hinge; other site 316407009953 active site 316407009954 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 316407009955 Predicted NTP binding protein (contains STAS domain) [General function prediction only]; Region: COG3113 316407009956 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 316407009957 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 316407009958 mce related protein; Region: MCE; pfam02470 316407009959 conserved hypothetical integral membrane protein; Region: TIGR00056 316407009960 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 316407009961 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 316407009962 Walker A/P-loop; other site 316407009963 ATP binding site [chemical binding]; other site 316407009964 Q-loop/lid; other site 316407009965 ABC transporter signature motif; other site 316407009966 Walker B; other site 316407009967 D-loop; other site 316407009968 H-loop/switch region; other site 316407009969 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 316407009970 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316407009971 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 316407009972 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 316407009973 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 316407009974 putative active site [active] 316407009975 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 316407009976 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 316407009977 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 316407009978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 316407009979 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 316407009980 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 316407009981 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 316407009982 Walker A/P-loop; other site 316407009983 ATP binding site [chemical binding]; other site 316407009984 Q-loop/lid; other site 316407009985 ABC transporter signature motif; other site 316407009986 Walker B; other site 316407009987 D-loop; other site 316407009988 H-loop/switch region; other site 316407009989 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 316407009990 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 316407009991 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 316407009992 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 316407009993 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 316407009994 30S subunit binding site; other site 316407009995 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 316407009996 active site 316407009997 phosphorylation site [posttranslational modification] 316407009998 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 316407009999 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 316407010000 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 316407010001 dimerization domain swap beta strand [polypeptide binding]; other site 316407010002 regulatory protein interface [polypeptide binding]; other site 316407010003 active site 316407010004 regulatory phosphorylation site [posttranslational modification]; other site 316407010005 hypothetical protein; Provisional; Region: PRK10345 316407010006 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 316407010007 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 316407010008 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 316407010009 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 316407010010 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 316407010011 conserved cys residue [active] 316407010012 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 316407010013 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 316407010014 putative active site [active] 316407010015 heme pocket [chemical binding]; other site 316407010016 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 316407010017 dimer interface [polypeptide binding]; other site 316407010018 phosphorylation site [posttranslational modification] 316407010019 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 316407010020 ATP binding site [chemical binding]; other site 316407010021 Mg2+ binding site [ion binding]; other site 316407010022 G-X-G motif; other site 316407010023 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 316407010024 active site 316407010025 phosphorylation site [posttranslational modification] 316407010026 intermolecular recognition site; other site 316407010027 dimerization interface [polypeptide binding]; other site 316407010028 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 316407010029 putative binding surface; other site 316407010030 active site 316407010031 radical SAM protein, TIGR01212 family; Region: TIGR01212 316407010032 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 316407010033 FeS/SAM binding site; other site 316407010034 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 316407010035 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 316407010036 active site 316407010037 dimer interface [polypeptide binding]; other site 316407010038 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 316407010039 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 316407010040 active site 316407010041 FMN binding site [chemical binding]; other site 316407010042 substrate binding site [chemical binding]; other site 316407010043 3Fe-4S cluster binding site [ion binding]; other site 316407010044 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 316407010045 domain interface; other site 316407010046 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 316407010047 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 316407010048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407010049 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407010050 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 316407010051 putative fimbrial chaperone protein; Provisional; Region: PRK09918 316407010052 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407010053 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407010054 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 316407010055 PapC N-terminal domain; Region: PapC_N; pfam13954 316407010056 Outer membrane usher protein; Region: Usher; pfam00577 316407010057 PapC C-terminal domain; Region: PapC_C; pfam13953 316407010058 ECK3207:JW3184+JW3187:b4569; hypothetical protein 316407010059 'ECK3207:JW3184:b3217; hypothetical protein, N-ter fragment' 316407010060 Transposase domain (DUF772); Region: DUF772; pfam05598 316407010061 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407010062 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407010063 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407010064 'ECK3207:JW3187:b4549; hypothetical protein, C-ter fragment' 316407010065 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 316407010066 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 316407010067 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 316407010068 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 316407010069 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407010070 nucleotide binding site [chemical binding]; other site 316407010071 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 316407010072 putative active site cavity [active] 316407010073 putative sialic acid transporter; Provisional; Region: PRK03893 316407010074 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407010075 putative substrate translocation pore; other site 316407010076 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 316407010077 inhibitor site; inhibition site 316407010078 active site 316407010079 dimer interface [polypeptide binding]; other site 316407010080 catalytic residue [active] 316407010081 transcriptional regulator NanR; Provisional; Region: PRK03837 316407010082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407010083 DNA-binding site [nucleotide binding]; DNA binding site 316407010084 FCD domain; Region: FCD; pfam07729 316407010085 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 316407010086 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 316407010087 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 316407010088 stringent starvation protein A; Provisional; Region: sspA; PRK09481 316407010089 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 316407010090 C-terminal domain interface [polypeptide binding]; other site 316407010091 putative GSH binding site (G-site) [chemical binding]; other site 316407010092 dimer interface [polypeptide binding]; other site 316407010093 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 316407010094 dimer interface [polypeptide binding]; other site 316407010095 N-terminal domain interface [polypeptide binding]; other site 316407010096 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 316407010097 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 316407010098 23S rRNA interface [nucleotide binding]; other site 316407010099 L3 interface [polypeptide binding]; other site 316407010100 Predicted ATPase [General function prediction only]; Region: COG1485 316407010101 hypothetical protein; Provisional; Region: PRK11677 316407010102 serine endoprotease; Provisional; Region: PRK10139 316407010103 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316407010104 PDZ domain of trypsin-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 316407010105 protein binding site [polypeptide binding]; other site 316407010106 PDZ domain of trypsin-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 316407010107 serine endoprotease; Provisional; Region: PRK10898 316407010108 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 316407010109 PDZ domain of trypsin-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 316407010110 protein binding site [polypeptide binding]; other site 316407010111 malate dehydrogenase; Provisional; Region: PRK05086 316407010112 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 316407010113 NAD binding site [chemical binding]; other site 316407010114 dimerization interface [polypeptide binding]; other site 316407010115 Substrate binding site [chemical binding]; other site 316407010116 arginine repressor; Provisional; Region: PRK05066 316407010117 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 316407010118 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 316407010119 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407010120 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 316407010121 RNAase interaction site [polypeptide binding]; other site 316407010122 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 316407010123 Fusaric acid resistance protein family; Region: FUSC; pfam04632 316407010124 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 316407010125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407010126 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407010127 efflux system membrane protein; Provisional; Region: PRK11594 316407010128 transcriptional regulator; Provisional; Region: PRK10632 316407010129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407010130 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 316407010131 putative effector binding pocket; other site 316407010132 dimerization interface [polypeptide binding]; other site 316407010133 protease TldD; Provisional; Region: tldD; PRK10735 316407010134 hypothetical protein; Provisional; Region: PRK10899 316407010135 Protein of unknown function; Region: DUF3971; pfam13116 316407010136 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407010137 ribonuclease G; Provisional; Region: PRK11712 316407010138 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 316407010139 homodimer interface [polypeptide binding]; other site 316407010140 oligonucleotide binding site [chemical binding]; other site 316407010141 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 316407010142 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 316407010143 active site 316407010144 dimer interface [polypeptide binding]; other site 316407010145 rod shape-determining protein MreD; Provisional; Region: PRK11060 316407010146 rod shape-determining protein MreC; Region: mreC; TIGR00219 316407010147 rod shape-determining protein MreB; Provisional; Region: PRK13927 316407010148 MreB and similar proteins; Region: MreB_like; cd10225 316407010149 nucleotide binding site [chemical binding]; other site 316407010150 Mg binding site [ion binding]; other site 316407010151 putative protofilament interaction site [polypeptide binding]; other site 316407010152 RodZ interaction site [polypeptide binding]; other site 316407010153 regulatory protein CsrD; Provisional; Region: PRK11059 316407010154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 316407010155 metal binding site [ion binding]; metal-binding site 316407010156 active site 316407010157 I-site; other site 316407010158 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 316407010159 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 316407010160 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 316407010161 NADP binding site [chemical binding]; other site 316407010162 dimer interface [polypeptide binding]; other site 316407010163 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 316407010164 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 316407010165 carboxyltransferase (CT) interaction site; other site 316407010166 biotinylation site [posttranslational modification]; other site 316407010167 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 316407010168 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 316407010169 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 316407010170 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 316407010171 hypothetical protein; Provisional; Region: PRK10633 316407010172 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 316407010173 Na binding site [ion binding]; other site 316407010174 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 316407010175 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 316407010176 S-adenosylmethionine binding site [chemical binding]; other site 316407010177 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 316407010178 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 316407010179 FMN binding site [chemical binding]; other site 316407010180 active site 316407010181 catalytic residues [active] 316407010182 substrate binding site [chemical binding]; other site 316407010183 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 316407010184 putative methyltransferase; Provisional; Region: PRK11524 316407010185 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 316407010186 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 316407010187 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 316407010188 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407010189 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 316407010190 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 316407010191 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407010192 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407010193 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 316407010194 MMPL family; Region: MMPL; cl14618 316407010195 MMPL family; Region: MMPL; cl14618 316407010196 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 316407010197 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 316407010198 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 316407010199 substrate binding pocket [chemical binding]; other site 316407010200 membrane-bound complex binding site; other site 316407010201 hinge residues; other site 316407010202 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 316407010203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 316407010204 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 316407010205 dimer interface [polypeptide binding]; other site 316407010206 conserved gate region; other site 316407010207 putative PBP binding loops; other site 316407010208 ABC-ATPase subunit interface; other site 316407010209 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 316407010210 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 316407010211 dimer interface [polypeptide binding]; other site 316407010212 conserved gate region; other site 316407010213 putative PBP binding loops; other site 316407010214 ABC-ATPase subunit interface; other site 316407010215 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 316407010216 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 316407010217 Walker A/P-loop; other site 316407010218 ATP binding site [chemical binding]; other site 316407010219 Q-loop/lid; other site 316407010220 ABC transporter signature motif; other site 316407010221 Walker B; other site 316407010222 D-loop; other site 316407010223 H-loop/switch region; other site 316407010224 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 316407010225 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 316407010226 purine monophosphate binding site [chemical binding]; other site 316407010227 dimer interface [polypeptide binding]; other site 316407010228 putative catalytic residues [active] 316407010229 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 316407010230 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 316407010231 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 316407010232 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 316407010233 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 316407010234 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 316407010235 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 316407010236 active site 316407010237 phosphorylation site [posttranslational modification] 316407010238 intermolecular recognition site; other site 316407010239 dimerization interface [polypeptide binding]; other site 316407010240 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 316407010241 Walker A motif; other site 316407010242 ATP binding site [chemical binding]; other site 316407010243 Walker B motif; other site 316407010244 arginine finger; other site 316407010245 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407010246 sensor protein ZraS; Provisional; Region: PRK10364 316407010247 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 316407010248 dimer interface [polypeptide binding]; other site 316407010249 phosphorylation site [posttranslational modification] 316407010250 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 316407010251 ATP binding site [chemical binding]; other site 316407010252 Mg2+ binding site [ion binding]; other site 316407010253 G-X-G motif; other site 316407010254 zinc resistance protein; Provisional; Region: zraP; PRK11546 316407010255 dimer interface [polypeptide binding]; other site 316407010256 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 316407010257 histone-like DNA-binding protein HU; Region: HU; cd13831 316407010258 dimer interface [polypeptide binding]; other site 316407010259 DNA binding site [nucleotide binding] 316407010260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 316407010261 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 316407010262 Active_site [active] 316407010263 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 316407010264 substrate binding site [chemical binding]; other site 316407010265 active site 316407010266 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 316407010267 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 316407010268 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 316407010269 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 316407010270 putative NADH binding site [chemical binding]; other site 316407010271 putative active site [active] 316407010272 nudix motif; other site 316407010273 putative metal binding site [ion binding]; other site 316407010274 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 316407010275 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 316407010276 ThiC-associated domain; Region: ThiC-associated; pfam13667 316407010277 ThiC family; Region: ThiC; pfam01964 316407010278 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 316407010279 thiamine phosphate binding site [chemical binding]; other site 316407010280 active site 316407010281 pyrophosphate binding site [ion binding]; other site 316407010282 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 316407010283 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 316407010284 ATP binding site [chemical binding]; other site 316407010285 substrate interface [chemical binding]; other site 316407010286 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 316407010287 thiS-thiF/thiG interaction site; other site 316407010288 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 316407010289 ThiS interaction site; other site 316407010290 putative active site [active] 316407010291 tetramer interface [polypeptide binding]; other site 316407010292 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 316407010293 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 316407010294 FeS/SAM binding site; other site 316407010295 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 316407010296 stationary phase growth adaptation protein; Provisional; Region: PRK09717 316407010297 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 316407010298 beta and beta' interface [polypeptide binding]; other site 316407010299 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 316407010300 beta' and sigma factor interface [polypeptide binding]; other site 316407010301 Zn-binding [ion binding]; other site 316407010302 active site region [active] 316407010303 catalytic site [active] 316407010304 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 316407010305 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 316407010306 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 316407010307 G-loop; other site 316407010308 DNA binding site [nucleotide binding] 316407010309 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 316407010310 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 316407010311 RPB12 interaction site [polypeptide binding]; other site 316407010312 RPB1 interaction site [polypeptide binding]; other site 316407010313 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 316407010314 RPB10 interaction site [polypeptide binding]; other site 316407010315 RPB11 interaction site [polypeptide binding]; other site 316407010316 RPB3 interaction site [polypeptide binding]; other site 316407010317 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 316407010318 core dimer interface [polypeptide binding]; other site 316407010319 peripheral dimer interface [polypeptide binding]; other site 316407010320 L10 interface [polypeptide binding]; other site 316407010321 L11 interface [polypeptide binding]; other site 316407010322 putative EF-Tu interaction site [polypeptide binding]; other site 316407010323 putative EF-G interaction site [polypeptide binding]; other site 316407010324 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 316407010325 23S rRNA interface [nucleotide binding]; other site 316407010326 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 316407010327 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 316407010328 mRNA/rRNA interface [nucleotide binding]; other site 316407010329 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 316407010330 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 316407010331 23S rRNA interface [nucleotide binding]; other site 316407010332 L7/L12 interface [polypeptide binding]; other site 316407010333 putative thiostrepton binding site; other site 316407010334 L25 interface [polypeptide binding]; other site 316407010335 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 316407010336 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 316407010337 putative homodimer interface [polypeptide binding]; other site 316407010338 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 316407010339 heterodimer interface [polypeptide binding]; other site 316407010340 homodimer interface [polypeptide binding]; other site 316407010341 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 316407010342 elongation factor Tu; Reviewed; Region: PRK00049 316407010343 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316407010344 G1 box; other site 316407010345 GEF interaction site [polypeptide binding]; other site 316407010346 GTP/Mg2+ binding site [chemical binding]; other site 316407010347 Switch I region; other site 316407010348 G2 box; other site 316407010349 G3 box; other site 316407010350 Switch II region; other site 316407010351 G4 box; other site 316407010352 G5 box; other site 316407010353 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 316407010354 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 316407010355 Antibiotic Binding Site [chemical binding]; other site 316407010356 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 316407010357 ATP-binding site [chemical binding]; other site 316407010358 CoA-binding site [chemical binding]; other site 316407010359 Mg2+-binding site [ion binding]; other site 316407010360 Biotin operon repressor [Transcription]; Region: BirA; COG1654 316407010361 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 316407010362 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 316407010363 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 316407010364 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 316407010365 FAD binding domain; Region: FAD_binding_4; pfam01565 316407010366 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 316407010367 glutamate racemase; Provisional; Region: PRK00865 316407010368 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 316407010369 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 316407010370 N-terminal plug; other site 316407010371 ligand-binding site [chemical binding]; other site 316407010372 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 316407010373 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 316407010374 S-adenosylmethionine binding site [chemical binding]; other site 316407010375 hypothetical protein; Provisional; Region: PRK11056 316407010376 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 316407010377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407010378 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 316407010379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407010380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407010381 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 316407010382 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 316407010383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407010384 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 316407010385 dimerization interface [polypeptide binding]; other site 316407010386 argininosuccinate lyase; Provisional; Region: PRK04833 316407010387 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 316407010388 active sites [active] 316407010389 tetramer interface [polypeptide binding]; other site 316407010390 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 316407010391 nucleotide binding site [chemical binding]; other site 316407010392 N-acetyl-L-glutamate binding site [chemical binding]; other site 316407010393 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 316407010394 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 316407010395 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 316407010396 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 316407010397 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 316407010398 metal binding site [ion binding]; metal-binding site 316407010399 putative dimer interface [polypeptide binding]; other site 316407010400 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 316407010401 hypothetical protein; Provisional; Region: PRK10649 316407010402 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316407010403 Sulfatase; Region: Sulfatase; pfam00884 316407010404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010405 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407010406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010407 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 316407010408 active site 316407010409 P-loop; other site 316407010410 phosphorylation site [posttranslational modification] 316407010411 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 316407010412 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 316407010413 FeS/SAM binding site; other site 316407010414 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 316407010415 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 316407010416 dimer interface [polypeptide binding]; other site 316407010417 active site 316407010418 glycine loop; other site 316407010419 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 316407010420 active site 316407010421 P-loop; other site 316407010422 phosphorylation site [posttranslational modification] 316407010423 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 316407010424 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 316407010425 dimerization domain swap beta strand [polypeptide binding]; other site 316407010426 regulatory protein interface [polypeptide binding]; other site 316407010427 active site 316407010428 regulatory phosphorylation site [posttranslational modification]; other site 316407010429 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 316407010430 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 316407010431 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 316407010432 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 316407010433 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 316407010434 active site 316407010435 phosphorylation site [posttranslational modification] 316407010436 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 316407010437 active site 316407010438 intersubunit interactions; other site 316407010439 catalytic residue [active] 316407010440 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 316407010441 dimer interface [polypeptide binding]; other site 316407010442 active site 316407010443 metal binding site [ion binding]; metal-binding site 316407010444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 316407010445 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316407010446 EamA-like transporter family; Region: EamA; pfam00892 316407010447 EamA-like transporter family; Region: EamA; pfam00892 316407010448 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 316407010449 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 316407010450 heme binding site [chemical binding]; other site 316407010451 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 316407010452 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 316407010453 FAD binding site [chemical binding]; other site 316407010454 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 316407010455 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 316407010456 putative catalytic residues [active] 316407010457 putative nucleotide binding site [chemical binding]; other site 316407010458 putative aspartate binding site [chemical binding]; other site 316407010459 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 316407010460 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 316407010461 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 316407010462 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 316407010463 homodimer interface [polypeptide binding]; other site 316407010464 substrate-cofactor binding pocket; other site 316407010465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407010466 catalytic residue [active] 316407010467 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 316407010468 dimerization interface [polypeptide binding]; other site 316407010469 DNA binding site [nucleotide binding] 316407010470 corepressor binding sites; other site 316407010471 hypothetical protein; Provisional; Region: PRK10030 316407010472 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 316407010473 primosome assembly protein PriA; Validated; Region: PRK05580 316407010474 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 316407010475 ATP binding site [chemical binding]; other site 316407010476 putative Mg++ binding site [ion binding]; other site 316407010477 helicase superfamily c-terminal domain; Region: HELICc; smart00490 316407010478 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407010479 DNA binding site [nucleotide binding] 316407010480 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 316407010481 domain linker motif; other site 316407010482 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 316407010483 dimerization interface [polypeptide binding]; other site 316407010484 ligand binding site [chemical binding]; other site 316407010485 essential cell division protein FtsN; Provisional; Region: PRK10927 316407010486 Sporulation related domain; Region: SPOR; pfam05036 316407010487 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 316407010488 active site 316407010489 HslU subunit interaction site [polypeptide binding]; other site 316407010490 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 316407010491 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 316407010492 Walker A motif; other site 316407010493 ATP binding site [chemical binding]; other site 316407010494 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 316407010495 Walker B motif; other site 316407010496 arginine finger; other site 316407010497 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 316407010498 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 316407010499 putative active site [active] 316407010500 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 316407010501 septal ring assembly protein ZapB; Provisional; Region: PRK15422 316407010502 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 316407010503 amphipathic channel; other site 316407010504 Asn-Pro-Ala signature motifs; other site 316407010505 glycerol kinase; Provisional; Region: glpK; PRK00047 316407010506 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 316407010507 N- and C-terminal domain interface [polypeptide binding]; other site 316407010508 active site 316407010509 MgATP binding site [chemical binding]; other site 316407010510 catalytic site [active] 316407010511 metal binding site [ion binding]; metal-binding site 316407010512 glycerol binding site [chemical binding]; other site 316407010513 homotetramer interface [polypeptide binding]; other site 316407010514 homodimer interface [polypeptide binding]; other site 316407010515 FBP binding site [chemical binding]; other site 316407010516 protein IIAGlc interface [polypeptide binding]; other site 316407010517 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 316407010518 putative active site [active] 316407010519 ferredoxin-NADP reductase; Provisional; Region: PRK10926 316407010520 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 316407010521 FAD binding pocket [chemical binding]; other site 316407010522 FAD binding motif [chemical binding]; other site 316407010523 phosphate binding motif [ion binding]; other site 316407010524 beta-alpha-beta structure motif; other site 316407010525 NAD binding pocket [chemical binding]; other site 316407010526 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 316407010527 Ligand Binding Site [chemical binding]; other site 316407010528 hypothetical protein; Provisional; Region: PRK09981 316407010529 Predicted membrane protein [Function unknown]; Region: COG3152 316407010530 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 316407010531 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 316407010532 substrate binding site [chemical binding]; other site 316407010533 dimer interface [polypeptide binding]; other site 316407010534 catalytic triad [active] 316407010535 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 316407010536 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 316407010537 substrate binding pocket [chemical binding]; other site 316407010538 membrane-bound complex binding site; other site 316407010539 hinge residues; other site 316407010540 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 316407010541 active site 316407010542 ADP/pyrophosphate binding site [chemical binding]; other site 316407010543 dimerization interface [polypeptide binding]; other site 316407010544 allosteric effector site; other site 316407010545 fructose-1,6-bisphosphate binding site; other site 316407010546 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 316407010547 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 316407010548 dimer interface [polypeptide binding]; other site 316407010549 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 316407010550 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 316407010551 active site 316407010552 intermolecular recognition site; other site 316407010553 dimerization interface [polypeptide binding]; other site 316407010554 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 316407010555 DNA binding site [nucleotide binding] 316407010556 two-component sensor protein; Provisional; Region: cpxA; PRK09470 316407010557 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 316407010558 dimerization interface [polypeptide binding]; other site 316407010559 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 316407010560 dimer interface [polypeptide binding]; other site 316407010561 phosphorylation site [posttranslational modification] 316407010562 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 316407010563 ATP binding site [chemical binding]; other site 316407010564 Mg2+ binding site [ion binding]; other site 316407010565 G-X-G motif; other site 316407010566 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 316407010567 MOSC domain; Region: MOSC; pfam03473 316407010568 3-alpha domain; Region: 3-alpha; pfam03475 316407010569 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 316407010570 superoxide dismutase; Provisional; Region: PRK10925 316407010571 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 316407010572 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 316407010573 Sugar transport protein; Region: Sugar_transport; cl19288 316407010574 transcriptional activator RhaR; Provisional; Region: PRK13500 316407010575 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316407010576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010578 transcriptional activator RhaS; Provisional; Region: PRK13503 316407010579 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316407010580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407010582 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 316407010583 N- and C-terminal domain interface [polypeptide binding]; other site 316407010584 active site 316407010585 putative catalytic site [active] 316407010586 metal binding site [ion binding]; metal-binding site 316407010587 ATP binding site [chemical binding]; other site 316407010588 rhamnulokinase; Provisional; Region: rhaB; PRK10640 316407010589 carbohydrate binding site [chemical binding]; other site 316407010590 L-rhamnose isomerase; Provisional; Region: PRK01076 316407010591 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 316407010592 intersubunit interface [polypeptide binding]; other site 316407010593 active site 316407010594 Zn2+ binding site [ion binding]; other site 316407010595 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 316407010596 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 316407010597 active site 316407010598 phosphorylation site [posttranslational modification] 316407010599 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 316407010600 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 316407010601 active site 316407010602 P-loop; other site 316407010603 phosphorylation site [posttranslational modification] 316407010604 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 316407010605 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 316407010606 oligomer interface [polypeptide binding]; other site 316407010607 active site 316407010608 metal binding site [ion binding]; metal-binding site 316407010609 putative frv operon regulatory protein; Provisional; Region: PRK09863 316407010610 HTH domain; Region: HTH_11; pfam08279 316407010611 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 316407010612 active site 316407010613 phosphorylation site [posttranslational modification] 316407010614 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 316407010615 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 316407010616 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 316407010617 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 316407010618 [4Fe-4S] binding site [ion binding]; other site 316407010619 molybdopterin cofactor binding site; other site 316407010620 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 316407010621 molybdopterin cofactor binding site; other site 316407010622 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 316407010623 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407010624 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 316407010625 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 316407010626 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 316407010627 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 316407010628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407010629 Coenzyme A binding pocket [chemical binding]; other site 316407010630 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 316407010631 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 316407010632 putative active site [active] 316407010633 dimerization interface [polypeptide binding]; other site 316407010634 putative tRNAtyr binding site [nucleotide binding]; other site 316407010635 hypothetical protein; Reviewed; Region: PRK01637 316407010636 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 316407010637 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 316407010638 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 316407010639 motif II; other site 316407010640 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316407010641 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 316407010642 putative DNA binding site [nucleotide binding]; other site 316407010643 putative Zn2+ binding site [ion binding]; other site 316407010644 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407010645 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 316407010646 substrate binding site [chemical binding]; other site 316407010647 ATP binding site [chemical binding]; other site 316407010648 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 316407010649 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 316407010650 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 316407010651 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 316407010652 catalytic residue [active] 316407010653 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 316407010654 dimerization interface [polypeptide binding]; other site 316407010655 putative active cleft [active] 316407010656 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 316407010657 active site 316407010658 catalytic residues [active] 316407010659 alpha-glucosidase; Provisional; Region: PRK10426 316407010660 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 316407010661 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 316407010662 putative active site [active] 316407010663 putative catalytic site [active] 316407010664 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316407010665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407010666 putative substrate translocation pore; other site 316407010667 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316407010668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407010669 putative substrate translocation pore; other site 316407010670 outer membrane porin L; Provisional; Region: ompL; PRK09980 316407010671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407010672 putative substrate translocation pore; other site 316407010673 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 316407010674 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 316407010675 transcriptional regulator protein; Region: phnR; TIGR03337 316407010676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407010677 DNA-binding site [nucleotide binding]; DNA binding site 316407010678 UTRA domain; Region: UTRA; pfam07702 316407010679 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 316407010680 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 316407010681 G1 box; other site 316407010682 putative GEF interaction site [polypeptide binding]; other site 316407010683 GTP/Mg2+ binding site [chemical binding]; other site 316407010684 Switch I region; other site 316407010685 G2 box; other site 316407010686 G3 box; other site 316407010687 Switch II region; other site 316407010688 G4 box; other site 316407010689 G5 box; other site 316407010690 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 316407010691 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 316407010692 glutamine synthetase; Provisional; Region: glnA; PRK09469 316407010693 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 316407010694 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 316407010695 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 316407010696 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 316407010697 putative active site [active] 316407010698 heme pocket [chemical binding]; other site 316407010699 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 316407010700 dimer interface [polypeptide binding]; other site 316407010701 phosphorylation site [posttranslational modification] 316407010702 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 316407010703 ATP binding site [chemical binding]; other site 316407010704 Mg2+ binding site [ion binding]; other site 316407010705 G-X-G motif; other site 316407010706 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 316407010707 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 316407010708 active site 316407010709 phosphorylation site [posttranslational modification] 316407010710 intermolecular recognition site; other site 316407010711 dimerization interface [polypeptide binding]; other site 316407010712 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 316407010713 Walker A motif; other site 316407010714 ATP binding site [chemical binding]; other site 316407010715 Walker B motif; other site 316407010716 arginine finger; other site 316407010717 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 316407010718 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 316407010719 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 316407010720 FeS/SAM binding site; other site 316407010721 HemN C-terminal domain; Region: HemN_C; pfam06969 316407010722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 316407010723 Predicted GTPase [General function prediction only]; Region: COG0218 316407010724 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 316407010725 G1 box; other site 316407010726 GTP/Mg2+ binding site [chemical binding]; other site 316407010727 Switch I region; other site 316407010728 G2 box; other site 316407010729 G3 box; other site 316407010730 Switch II region; other site 316407010731 G4 box; other site 316407010732 G5 box; other site 316407010733 DNA polymerase I; Provisional; Region: PRK05755 316407010734 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 316407010735 active site 316407010736 metal binding site 1 [ion binding]; metal-binding site 316407010737 putative 5' ssDNA interaction site; other site 316407010738 metal binding site 3; metal-binding site 316407010739 metal binding site 2 [ion binding]; metal-binding site 316407010740 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 316407010741 putative DNA binding site [nucleotide binding]; other site 316407010742 putative metal binding site [ion binding]; other site 316407010743 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 316407010744 active site 316407010745 catalytic site [active] 316407010746 substrate binding site [chemical binding]; other site 316407010747 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 316407010748 active site 316407010749 DNA binding site [nucleotide binding] 316407010750 catalytic site [active] 316407010751 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 316407010752 putative acyl-acceptor binding pocket; other site 316407010753 hypothetical protein; Provisional; Region: PRK11367 316407010754 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 316407010755 catalytic residues [active] 316407010756 hinge region; other site 316407010757 alpha helical domain; other site 316407010758 serine/threonine protein kinase; Provisional; Region: PRK11768 316407010759 Phosphotransferase enzyme family; Region: APH; pfam01636 316407010760 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 316407010761 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 316407010762 GTP binding site; other site 316407010763 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 316407010764 Walker A motif; other site 316407010765 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 316407010766 potassium transporter; Provisional; Region: PRK10750 316407010767 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 316407010768 hypothetical protein; Provisional; Region: PRK11568 316407010769 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 316407010770 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 316407010771 proline dipeptidase; Provisional; Region: PRK13607 316407010772 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 316407010773 active site 316407010774 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 316407010775 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 316407010776 substrate binding site [chemical binding]; other site 316407010777 oxyanion hole (OAH) forming residues; other site 316407010778 trimer interface [polypeptide binding]; other site 316407010779 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 316407010780 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407010781 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 316407010782 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 316407010783 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 316407010784 dimer interface [polypeptide binding]; other site 316407010785 active site 316407010786 FMN reductase; Validated; Region: fre; PRK08051 316407010787 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 316407010788 FAD binding pocket [chemical binding]; other site 316407010789 FAD binding motif [chemical binding]; other site 316407010790 phosphate binding motif [ion binding]; other site 316407010791 beta-alpha-beta structure motif; other site 316407010792 NAD binding pocket [chemical binding]; other site 316407010793 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 316407010794 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 316407010795 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 316407010796 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 316407010797 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316407010798 active site 316407010799 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 316407010800 sec-independent translocase; Provisional; Region: PRK01770 316407010801 sec-independent translocase; Provisional; Region: tatB; PRK00404 316407010802 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 316407010803 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 316407010804 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 316407010805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 316407010806 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 316407010807 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 316407010808 S-adenosylmethionine binding site [chemical binding]; other site 316407010809 DNA recombination protein RmuC; Provisional; Region: PRK10361 316407010810 RmuC family; Region: RmuC; pfam02646 316407010811 uridine phosphorylase; Provisional; Region: PRK11178 316407010812 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 316407010813 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 316407010814 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 316407010815 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 316407010816 THF binding site; other site 316407010817 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 316407010818 substrate binding site [chemical binding]; other site 316407010819 THF binding site; other site 316407010820 zinc-binding site [ion binding]; other site 316407010821 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 316407010822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407010823 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 316407010824 putative dimerization interface [polypeptide binding]; other site 316407010825 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316407010826 EamA-like transporter family; Region: EamA; pfam00892 316407010827 putative hydrolase; Provisional; Region: PRK10976 316407010828 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 316407010829 active site 316407010830 motif I; other site 316407010831 motif II; other site 316407010832 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407010833 lysophospholipase L2; Provisional; Region: PRK10749 316407010834 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 316407010835 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 316407010836 threonine efflux system; Provisional; Region: PRK10229 316407010837 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 316407010838 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 316407010839 ATP binding site [chemical binding]; other site 316407010840 putative Mg++ binding site [ion binding]; other site 316407010841 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 316407010842 nucleotide binding region [chemical binding]; other site 316407010843 ATP-binding site [chemical binding]; other site 316407010844 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 316407010845 Helicase and RNase D C-terminal; Region: HRDC; smart00341 316407010846 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 316407010847 dimerization interface [polypeptide binding]; other site 316407010848 substrate binding site [chemical binding]; other site 316407010849 active site 316407010850 calcium binding site [ion binding]; other site 316407010851 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 316407010852 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 316407010853 CoenzymeA binding site [chemical binding]; other site 316407010854 subunit interaction site [polypeptide binding]; other site 316407010855 PHB binding site; other site 316407010856 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 316407010857 Multidrug resistance efflux transporter; Region: EmrE; cl19304 316407010858 hypothetical protein; Provisional; Region: PRK11371 316407010859 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 316407010860 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 316407010861 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 316407010862 Cl binding site [ion binding]; other site 316407010863 oligomer interface [polypeptide binding]; other site 316407010864 Predicted periplasmic protein [Function unknown]; Region: COG3698 316407010865 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 316407010866 Part of AAA domain; Region: AAA_19; pfam13245 316407010867 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 316407010868 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 316407010869 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 316407010870 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 316407010871 motif II; other site 316407010872 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 316407010873 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 316407010874 active site 316407010875 Int/Topo IB signature motif; other site 316407010876 hypothetical protein; Provisional; Region: PRK10963 316407010877 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 316407010878 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316407010879 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 316407010880 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 316407010881 hypothetical protein; Provisional; Region: PRK09807 316407010882 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 316407010883 putative iron binding site [ion binding]; other site 316407010884 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 316407010885 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 316407010886 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 316407010887 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 316407010888 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 316407010889 domain interfaces; other site 316407010890 active site 316407010891 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 316407010892 active site 316407010893 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 316407010894 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 316407010895 HemY protein N-terminus; Region: HemY_N; pfam07219 316407010896 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316407010897 Sulfatase; Region: Sulfatase; pfam00884 316407010898 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 316407010899 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 316407010900 FeS/SAM binding site; other site 316407010901 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 316407010902 putative transport protein YifK; Provisional; Region: PRK10746 316407010903 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 316407010904 putative common antigen polymerase; Provisional; Region: PRK02975 316407010905 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 316407010906 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 316407010907 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 316407010908 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 316407010909 inhibitor-cofactor binding pocket; inhibition site 316407010910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407010911 catalytic residue [active] 316407010912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316407010913 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 316407010914 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 316407010915 substrate binding site; other site 316407010916 tetramer interface; other site 316407010917 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 316407010918 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 316407010919 NAD binding site [chemical binding]; other site 316407010920 substrate binding site [chemical binding]; other site 316407010921 homodimer interface [polypeptide binding]; other site 316407010922 active site 316407010923 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 316407010924 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 316407010925 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 316407010926 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 316407010927 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 316407010928 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 316407010929 active site 316407010930 homodimer interface [polypeptide binding]; other site 316407010931 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 316407010932 Chain length determinant protein; Region: Wzz; pfam02706 316407010933 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 316407010934 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 316407010935 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 316407010936 Mg++ binding site [ion binding]; other site 316407010937 putative catalytic motif [active] 316407010938 substrate binding site [chemical binding]; other site 316407010939 transcription termination factor Rho; Provisional; Region: rho; PRK09376 316407010940 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 316407010941 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 316407010942 RNA binding site [nucleotide binding]; other site 316407010943 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 316407010944 multimer interface [polypeptide binding]; other site 316407010945 Walker A motif; other site 316407010946 ATP binding site [chemical binding]; other site 316407010947 Walker B motif; other site 316407010948 putative rho operon leader peptide; Provisional; Region: PRK09979 316407010949 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 316407010950 catalytic residues [active] 316407010951 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 316407010952 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 316407010953 ATP binding site [chemical binding]; other site 316407010954 Mg++ binding site [ion binding]; other site 316407010955 motif III; other site 316407010956 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 316407010957 nucleotide binding region [chemical binding]; other site 316407010958 ATP-binding site [chemical binding]; other site 316407010959 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 316407010960 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 316407010961 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 316407010962 Part of AAA domain; Region: AAA_19; pfam13245 316407010963 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 316407010964 ECK3769:JW3750:b3777; conserved hypothetical protein 316407010965 PemK-like protein; Region: PemK; cl00995 316407010966 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 316407010967 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 316407010968 ketol-acid reductoisomerase; Validated; Region: PRK05225 316407010969 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 316407010970 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 316407010971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407010972 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 316407010973 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 316407010974 putative dimerization interface [polypeptide binding]; other site 316407010975 threonine dehydratase; Reviewed; Region: PRK09224 316407010976 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 316407010977 tetramer interface [polypeptide binding]; other site 316407010978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407010979 catalytic residue [active] 316407010980 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 316407010981 putative Ile/Val binding site [chemical binding]; other site 316407010982 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 316407010983 putative Ile/Val binding site [chemical binding]; other site 316407010984 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 316407010985 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 316407010986 homodimer interface [polypeptide binding]; other site 316407010987 substrate-cofactor binding pocket; other site 316407010988 catalytic residue [active] 316407010989 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 316407010990 ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II 316407010991 'ECK3760:JW3741:b3768; acetolactate synthase II, large subunit, C-ter fragment' 316407010992 'ECK3760:JW3740:b3767; acetolactate synthase II, large subunit, N-ter fragment' 316407010993 ilvG operon leader peptide; Provisional; Region: PRK10424 316407010994 putative ATP-dependent protease; Provisional; Region: PRK09862 316407010995 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316407010996 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 316407010997 Walker A motif; other site 316407010998 ATP binding site [chemical binding]; other site 316407010999 Walker B motif; other site 316407011000 arginine finger; other site 316407011001 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 316407011002 hypothetical protein; Provisional; Region: PRK11027 316407011003 transcriptional regulator HdfR; Provisional; Region: PRK03601 316407011004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407011005 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 316407011006 dimerization interface [polypeptide binding]; other site 316407011007 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316407011008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407011009 DNA-binding site [nucleotide binding]; DNA binding site 316407011010 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407011011 putative transporter; Provisional; Region: PRK10504 316407011012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011013 putative substrate translocation pore; other site 316407011014 transcriptional repressor RbsR; Provisional; Region: PRK10423 316407011015 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407011016 DNA binding site [nucleotide binding] 316407011017 domain linker motif; other site 316407011018 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 316407011019 dimerization interface [polypeptide binding]; other site 316407011020 ligand binding site [chemical binding]; other site 316407011021 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 316407011022 substrate binding site [chemical binding]; other site 316407011023 dimer interface [polypeptide binding]; other site 316407011024 ATP binding site [chemical binding]; other site 316407011025 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 316407011026 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 316407011027 ligand binding site [chemical binding]; other site 316407011028 dimerization interface [polypeptide binding]; other site 316407011029 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 316407011030 TM-ABC transporter signature motif; other site 316407011031 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 316407011032 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407011033 Walker A/P-loop; other site 316407011034 ATP binding site [chemical binding]; other site 316407011035 Q-loop/lid; other site 316407011036 ABC transporter signature motif; other site 316407011037 Walker B; other site 316407011038 D-loop; other site 316407011039 H-loop/switch region; other site 316407011040 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407011041 D-ribose pyranase; Provisional; Region: PRK11797 316407011042 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 316407011043 regulatory ATPase RavA; Provisional; Region: PRK13531 316407011044 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 316407011045 Walker A motif; other site 316407011046 ATP binding site [chemical binding]; other site 316407011047 Walker B motif; other site 316407011048 arginine finger; other site 316407011049 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 316407011050 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 316407011051 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 316407011052 metal ion-dependent adhesion site (MIDAS); other site 316407011053 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 316407011054 dimer interface [polypeptide binding]; other site 316407011055 active site 316407011056 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 316407011057 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 316407011058 putative DNA binding site [nucleotide binding]; other site 316407011059 putative Zn2+ binding site [ion binding]; other site 316407011060 AsnC family; Region: AsnC_trans_reg; pfam01037 316407011061 FMN-binding protein MioC; Provisional; Region: PRK09004 316407011062 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 316407011063 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 316407011064 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 316407011065 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 316407011066 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 316407011067 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 316407011068 S-adenosylmethionine binding site [chemical binding]; other site 316407011069 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 316407011070 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 316407011071 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 316407011072 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 316407011073 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 316407011074 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 316407011075 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 316407011076 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316407011077 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 316407011078 beta subunit interaction interface [polypeptide binding]; other site 316407011079 Walker A motif; other site 316407011080 ATP binding site [chemical binding]; other site 316407011081 Walker B motif; other site 316407011082 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316407011083 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 316407011084 core domain interface [polypeptide binding]; other site 316407011085 delta subunit interface [polypeptide binding]; other site 316407011086 epsilon subunit interface [polypeptide binding]; other site 316407011087 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 316407011088 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 316407011089 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 316407011090 alpha subunit interaction interface [polypeptide binding]; other site 316407011091 Walker A motif; other site 316407011092 ATP binding site [chemical binding]; other site 316407011093 Walker B motif; other site 316407011094 inhibitor binding site; inhibition site 316407011095 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 316407011096 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 316407011097 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 316407011098 gamma subunit interface [polypeptide binding]; other site 316407011099 epsilon subunit interface [polypeptide binding]; other site 316407011100 LBP interface [polypeptide binding]; other site 316407011101 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 316407011102 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 316407011103 Substrate binding site; other site 316407011104 Mg++ binding site; other site 316407011105 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 316407011106 active site 316407011107 substrate binding site [chemical binding]; other site 316407011108 CoA binding site [chemical binding]; other site 316407011109 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 316407011110 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 316407011111 glutaminase active site [active] 316407011112 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 316407011113 dimer interface [polypeptide binding]; other site 316407011114 active site 316407011115 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 316407011116 dimer interface [polypeptide binding]; other site 316407011117 active site 316407011118 phosphate ABC transporter periplasmic substrate-binding protein PstS; Provisional; Region: PRK10918 316407011119 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 316407011120 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 316407011121 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 316407011122 dimer interface [polypeptide binding]; other site 316407011123 conserved gate region; other site 316407011124 putative PBP binding loops; other site 316407011125 ABC-ATPase subunit interface; other site 316407011126 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 316407011127 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 316407011128 dimer interface [polypeptide binding]; other site 316407011129 conserved gate region; other site 316407011130 putative PBP binding loops; other site 316407011131 ABC-ATPase subunit interface; other site 316407011132 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 316407011133 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 316407011134 Walker A/P-loop; other site 316407011135 ATP binding site [chemical binding]; other site 316407011136 Q-loop/lid; other site 316407011137 ABC transporter signature motif; other site 316407011138 Walker B; other site 316407011139 D-loop; other site 316407011140 H-loop/switch region; other site 316407011141 transcriptional regulator PhoU; Provisional; Region: PRK11115 316407011142 PhoU domain; Region: PhoU; pfam01895 316407011143 PhoU domain; Region: PhoU; pfam01895 316407011144 transcriptional antiterminator BglG; Provisional; Region: PRK09772 316407011145 CAT RNA binding domain; Region: CAT_RBD; pfam03123 316407011146 PRD domain; Region: PRD; pfam00874 316407011147 PRD domain; Region: PRD; pfam00874 316407011148 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 316407011149 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 316407011150 active site turn [active] 316407011151 phosphorylation site [posttranslational modification] 316407011152 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407011153 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 316407011154 HPr interaction site; other site 316407011155 glycerol kinase (GK) interaction site [polypeptide binding]; other site 316407011156 active site 316407011157 phosphorylation site [posttranslational modification] 316407011158 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 316407011159 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 316407011160 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 316407011161 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 316407011162 maltoporin; Provisional; Region: lamB; PRK09360 316407011163 trimer interface; other site 316407011164 sugar binding site [chemical binding]; other site 316407011165 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 316407011166 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 316407011167 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 316407011168 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 316407011169 active site 316407011170 trimer interface [polypeptide binding]; other site 316407011171 allosteric site; other site 316407011172 active site lid [active] 316407011173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3196 316407011174 putative inner membrane protein; Provisional; Region: PRK09823 316407011175 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 316407011176 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 316407011177 active site 316407011178 motif I; other site 316407011179 motif II; other site 316407011180 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316407011181 Predicted flavoprotein [General function prediction only]; Region: COG0431 316407011182 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 316407011183 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407011184 HTH-like domain; Region: HTH_21; pfam13276 316407011185 Integrase core domain; Region: rve; pfam00665 316407011186 Integrase core domain; Region: rve_3; pfam13683 316407011187 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407011188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407011189 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 316407011190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407011191 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 316407011192 substrate binding pocket [chemical binding]; other site 316407011193 dimerization interface [polypeptide binding]; other site 316407011194 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 316407011195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011196 putative substrate translocation pore; other site 316407011197 'ECK3702:JW5619+JW5622:b3709; IS is inserted, intact tnaB is found in strain MG1655' 316407011198 Transposase domain (DUF772); Region: DUF772; pfam05598 316407011199 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407011200 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407011201 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407011202 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 316407011203 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 316407011204 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407011205 catalytic residue [active] 316407011206 Transposase domain (DUF772); Region: DUF772; pfam05598 316407011207 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407011208 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407011209 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407011210 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 316407011211 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 316407011212 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 316407011213 trmE is a tRNA modification GTPase; Region: trmE; cd04164 316407011214 G1 box; other site 316407011215 GTP/Mg2+ binding site [chemical binding]; other site 316407011216 Switch I region; other site 316407011217 G2 box; other site 316407011218 Switch II region; other site 316407011219 G3 box; other site 316407011220 G4 box; other site 316407011221 G5 box; other site 316407011222 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 316407011223 membrane protein insertase; Provisional; Region: PRK01318 316407011224 YidC periplasmic domain; Region: YidC_periplas; pfam14849 316407011225 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 316407011226 hypothetical protein; Validated; Region: PRK00041 316407011227 ribonuclease P; Reviewed; Region: rnpA; PRK01732 316407011228 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 316407011229 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 316407011230 DnaA N-terminal domain; Region: DnaA_N; pfam11638 316407011231 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 316407011232 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 316407011233 Walker A motif; other site 316407011234 ATP binding site [chemical binding]; other site 316407011235 Walker B motif; other site 316407011236 arginine finger; other site 316407011237 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 316407011238 DnaA box-binding interface [nucleotide binding]; other site 316407011239 DNA polymerase III subunit beta; Validated; Region: PRK05643 316407011240 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 316407011241 putative DNA binding surface [nucleotide binding]; other site 316407011242 dimer interface [polypeptide binding]; other site 316407011243 beta-clamp/clamp loader binding surface; other site 316407011244 beta-clamp/translesion DNA polymerase binding surface; other site 316407011245 recF protein; Region: recf; TIGR00611 316407011246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407011247 Walker A/P-loop; other site 316407011248 ATP binding site [chemical binding]; other site 316407011249 Q-loop/lid; other site 316407011250 ABC transporter signature motif; other site 316407011251 Walker B; other site 316407011252 D-loop; other site 316407011253 H-loop/switch region; other site 316407011254 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 316407011255 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 316407011256 ATP binding site [chemical binding]; other site 316407011257 Mg2+ binding site [ion binding]; other site 316407011258 G-X-G motif; other site 316407011259 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 316407011260 anchoring element; other site 316407011261 dimer interface [polypeptide binding]; other site 316407011262 ATP binding site [chemical binding]; other site 316407011263 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 316407011264 active site 316407011265 putative metal-binding site [ion binding]; other site 316407011266 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 316407011267 hypothetical protein; Provisional; Region: PRK11426 316407011268 sugar phosphate phosphatase; Provisional; Region: PRK10513 316407011269 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 316407011270 active site 316407011271 motif I; other site 316407011272 motif II; other site 316407011273 hypothetical protein; Provisional; Region: PRK10215 316407011274 Transcriptional regulators [Transcription]; Region: FadR; COG2186 316407011275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407011276 DNA-binding site [nucleotide binding]; DNA binding site 316407011277 FCD domain; Region: FCD; pfam07729 316407011278 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 316407011279 Entner-Doudoroff aldolase; Region: eda; TIGR01182 316407011280 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 316407011281 active site 316407011282 intersubunit interface [polypeptide binding]; other site 316407011283 catalytic residue [active] 316407011284 galactonate dehydratase; Provisional; Region: PRK14017 316407011285 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 316407011286 putative active site pocket [active] 316407011287 putative metal binding site [ion binding]; other site 316407011288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011289 D-galactonate transporter; Region: 2A0114; TIGR00893 316407011290 putative substrate translocation pore; other site 316407011291 putative oxidoreductase; Provisional; Region: PRK11445 316407011292 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 316407011293 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 316407011294 hypothetical protein; Provisional; Region: PRK11616 316407011295 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316407011296 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 316407011297 putative dimer interface [polypeptide binding]; other site 316407011298 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 316407011299 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 316407011300 putative dimer interface [polypeptide binding]; other site 316407011301 putative transporter; Validated; Region: PRK03818 316407011302 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 316407011303 TrkA-C domain; Region: TrkA_C; pfam02080 316407011304 TrkA-C domain; Region: TrkA_C; pfam02080 316407011305 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 316407011306 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316407011307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407011308 DNA-binding site [nucleotide binding]; DNA binding site 316407011309 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 316407011310 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 316407011311 PTS system arbutin-specific transporter subunit IIB; Provisional; Region: PRK09702 316407011312 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407011313 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 316407011314 active site turn [active] 316407011315 phosphorylation site [posttranslational modification] 316407011316 ECK3673:JW3658:b3681; predicted 6-phospho-beta-glucosidase 316407011317 ECK3672:JW5937:b4556; hypothetical protein 316407011318 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 316407011319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407011321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011322 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 316407011323 Na binding site [ion binding]; other site 316407011324 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 316407011325 Sulfatase; Region: Sulfatase; pfam00884 316407011326 Predicted membrane protein [Function unknown]; Region: COG2149 316407011327 Domain of unknown function (DUF202); Region: DUF202; pfam02656 316407011328 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 316407011329 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 316407011330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011331 putative substrate translocation pore; other site 316407011332 ilvB operon leader peptide; Provisional; Region: PRK10214 316407011333 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 316407011334 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 316407011335 PYR/PP interface [polypeptide binding]; other site 316407011336 dimer interface [polypeptide binding]; other site 316407011337 TPP binding site [chemical binding]; other site 316407011338 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 316407011339 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 316407011340 TPP-binding site [chemical binding]; other site 316407011341 dimer interface [polypeptide binding]; other site 316407011342 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 316407011343 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 316407011344 putative valine binding site [chemical binding]; other site 316407011345 dimer interface [polypeptide binding]; other site 316407011346 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 316407011347 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 316407011348 active site 316407011349 phosphorylation site [posttranslational modification] 316407011350 intermolecular recognition site; other site 316407011351 dimerization interface [polypeptide binding]; other site 316407011352 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 316407011353 DNA binding residues [nucleotide binding] 316407011354 dimerization interface [polypeptide binding]; other site 316407011355 sensory histidine kinase UhpB; Provisional; Region: PRK11644 316407011356 MASE1; Region: MASE1; pfam05231 316407011357 Histidine kinase; Region: HisKA_3; pfam07730 316407011358 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 316407011359 ATP binding site [chemical binding]; other site 316407011360 Mg2+ binding site [ion binding]; other site 316407011361 G-X-G motif; other site 316407011362 regulatory protein UhpC; Provisional; Region: PRK11663 316407011363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011364 putative substrate translocation pore; other site 316407011365 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 316407011366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011367 putative substrate translocation pore; other site 316407011368 cryptic adenine deaminase; Provisional; Region: PRK10027 316407011369 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 316407011370 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 316407011371 active site 316407011372 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316407011373 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 316407011374 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 316407011375 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011376 putative substrate translocation pore; other site 316407011377 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 316407011378 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 316407011379 EamA-like transporter family; Region: EamA; pfam00892 316407011380 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 316407011381 EamA-like transporter family; Region: EamA; pfam00892 316407011382 sugar efflux transporter B; Provisional; Region: PRK15011 316407011383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011384 putative substrate translocation pore; other site 316407011385 putative transporter; Provisional; Region: PRK11462 316407011386 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 316407011387 putative alpha-glucosidase; Provisional; Region: PRK10658 316407011388 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 316407011389 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 316407011390 active site 316407011391 homotrimer interface [polypeptide binding]; other site 316407011392 catalytic site [active] 316407011393 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 316407011394 AsmA family; Region: AsmA; pfam05170 316407011395 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 316407011396 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407011397 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 316407011398 Sulfate transporter family; Region: Sulfate_transp; cl19250 316407011399 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 316407011400 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 316407011401 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 316407011402 generic binding surface II; other site 316407011403 ssDNA binding site; other site 316407011404 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 316407011405 ATP binding site [chemical binding]; other site 316407011406 putative Mg++ binding site [ion binding]; other site 316407011407 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 316407011408 nucleotide binding region [chemical binding]; other site 316407011409 ATP-binding site [chemical binding]; other site 316407011410 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 316407011411 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316407011412 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 316407011413 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 316407011414 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 316407011415 Zn2+ binding site [ion binding]; other site 316407011416 Mg2+ binding site [ion binding]; other site 316407011417 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 316407011418 synthetase active site [active] 316407011419 NTP binding site [chemical binding]; other site 316407011420 metal binding site [ion binding]; metal-binding site 316407011421 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 316407011422 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 316407011423 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 316407011424 Guanylate kinase; Region: Guanylate_kin; pfam00625 316407011425 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 316407011426 catalytic site [active] 316407011427 G-X2-G-X-G-K; other site 316407011428 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 316407011429 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 316407011430 nucleotide binding pocket [chemical binding]; other site 316407011431 K-X-D-G motif; other site 316407011432 catalytic site [active] 316407011433 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 316407011434 Predicted membrane protein [Function unknown]; Region: COG2860 316407011435 UPF0126 domain; Region: UPF0126; pfam03458 316407011436 UPF0126 domain; Region: UPF0126; pfam03458 316407011437 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 316407011438 BRO family, N-terminal domain; Region: Bro-N; pfam02498 316407011439 hypothetical protein; Provisional; Region: PRK11820 316407011440 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 316407011441 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 316407011442 ECK3633:JW3618:b3643; ribonuclease PH 316407011443 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407011444 active site 316407011445 division inhibitor protein; Provisional; Region: slmA; PRK09480 316407011446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407011447 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 316407011448 trimer interface [polypeptide binding]; other site 316407011449 active site 316407011450 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 316407011451 Flavoprotein; Region: Flavoprotein; cl19190 316407011452 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 316407011453 hypothetical protein; Reviewed; Region: PRK00024 316407011454 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 316407011455 MPN+ (JAMM) motif; other site 316407011456 Zinc-binding site [ion binding]; other site 316407011457 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 316407011458 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 316407011459 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 316407011460 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 316407011461 DNA binding site [nucleotide binding] 316407011462 catalytic residue [active] 316407011463 H2TH interface [polypeptide binding]; other site 316407011464 putative catalytic residues [active] 316407011465 turnover-facilitating residue; other site 316407011466 intercalation triad [nucleotide binding]; other site 316407011467 8OG recognition residue [nucleotide binding]; other site 316407011468 putative reading head residues; other site 316407011469 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 316407011470 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 316407011471 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 316407011472 active site 316407011473 (T/H)XGH motif; other site 316407011474 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 316407011475 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 316407011476 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 316407011477 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 316407011478 putative active site [active] 316407011479 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 316407011480 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 316407011481 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 316407011482 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 316407011483 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 316407011484 putative ADP-binding pocket [chemical binding]; other site 316407011485 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 316407011486 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 316407011487 Ligand binding site; other site 316407011488 metal-binding site 316407011489 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 316407011490 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 316407011491 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 316407011492 Ligand binding site; other site 316407011493 metal-binding site 316407011494 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 316407011495 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10359 316407011496 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 316407011497 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 316407011498 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 316407011499 O-Antigen ligase; Region: Wzy_C; pfam04932 316407011500 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 316407011501 putative active site [active] 316407011502 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 316407011503 putative active site [active] 316407011504 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 316407011505 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 316407011506 NADP binding site [chemical binding]; other site 316407011507 homopentamer interface [polypeptide binding]; other site 316407011508 substrate binding site [chemical binding]; other site 316407011509 active site 316407011510 hypothetical protein; Provisional; Region: PRK11346 316407011511 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 316407011512 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 316407011513 substrate-cofactor binding pocket; other site 316407011514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407011515 catalytic residue [active] 316407011516 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 316407011517 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316407011518 NAD(P) binding site [chemical binding]; other site 316407011519 putative glycosyl transferase; Provisional; Region: PRK10073 316407011520 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 316407011521 active site 316407011522 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 316407011523 NodB motif; other site 316407011524 putative active site [active] 316407011525 putative catalytic site [active] 316407011526 Zn binding site [ion binding]; other site 316407011527 AmiB activator; Provisional; Region: PRK11637 316407011528 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 316407011529 HemX; Region: HemX; cl19375 316407011530 Peptidase family M23; Region: Peptidase_M23; pfam01551 316407011531 phosphoglyceromutase; Provisional; Region: PRK05434 316407011532 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 316407011533 active site residue [active] 316407011534 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 316407011535 GSH binding site [chemical binding]; other site 316407011536 catalytic residues [active] 316407011537 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 316407011538 SecA binding site; other site 316407011539 Preprotein binding site; other site 316407011540 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 316407011541 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 316407011542 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 316407011543 serine acetyltransferase; Provisional; Region: cysE; PRK11132 316407011544 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 316407011545 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 316407011546 trimer interface [polypeptide binding]; other site 316407011547 active site 316407011548 substrate binding site [chemical binding]; other site 316407011549 CoA binding site [chemical binding]; other site 316407011550 putative rRNA methylase; Provisional; Region: PRK10358 316407011551 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 316407011552 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 316407011553 active site 316407011554 substrate binding site [chemical binding]; other site 316407011555 FMN binding site [chemical binding]; other site 316407011556 putative catalytic residues [active] 316407011557 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 316407011558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407011559 DNA-binding site [nucleotide binding]; DNA binding site 316407011560 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407011561 L-lactate permease; Provisional; Region: PRK10420 316407011562 hypothetical protein; Provisional; Region: PRK11020 316407011563 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 316407011564 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 316407011565 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316407011566 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316407011567 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 316407011568 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 316407011569 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 316407011570 active site 316407011571 P-loop; other site 316407011572 phosphorylation site [posttranslational modification] 316407011573 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 316407011574 active site 316407011575 phosphorylation site [posttranslational modification] 316407011576 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 316407011577 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316407011578 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407011579 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407011580 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316407011581 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407011582 RHS protein; Region: RHS; pfam03527 316407011583 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407011584 putative lyase; Provisional; Region: PRK09687 316407011585 HEAT-like repeat; Region: HEAT_EZ; pfam13513 316407011586 PAAR motif; Region: PAAR_motif; cl15808 316407011587 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407011588 RHS Repeat; Region: RHS_repeat; pfam05593 316407011589 RHS Repeat; Region: RHS_repeat; pfam05593 316407011590 RHS Repeat; Region: RHS_repeat; pfam05593 316407011591 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407011592 RHS Repeat; Region: RHS_repeat; pfam05593 316407011593 RHS Repeat; Region: RHS_repeat; pfam05593 316407011594 RHS protein; Region: RHS; pfam03527 316407011595 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407011596 Putative toxin 55; Region: Toxin_55; pfam15606 316407011597 putative glutathione S-transferase; Provisional; Region: PRK10357 316407011598 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 316407011599 putative C-terminal domain interface [polypeptide binding]; other site 316407011600 putative GSH binding site (G-site) [chemical binding]; other site 316407011601 putative dimer interface [polypeptide binding]; other site 316407011602 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 316407011603 dimer interface [polypeptide binding]; other site 316407011604 N-terminal domain interface [polypeptide binding]; other site 316407011605 putative substrate binding pocket (H-site) [chemical binding]; other site 316407011606 selenocysteine synthase; Provisional; Region: PRK04311 316407011607 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 316407011608 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 316407011609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407011610 catalytic residue [active] 316407011611 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 316407011612 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 316407011613 G1 box; other site 316407011614 putative GEF interaction site [polypeptide binding]; other site 316407011615 GTP/Mg2+ binding site [chemical binding]; other site 316407011616 Switch I region; other site 316407011617 G2 box; other site 316407011618 G3 box; other site 316407011619 Switch II region; other site 316407011620 G4 box; other site 316407011621 G5 box; other site 316407011622 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 316407011623 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 316407011624 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 316407011625 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 316407011626 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 316407011627 dimer interface [polypeptide binding]; other site 316407011628 active site 316407011629 metal binding site [ion binding]; metal-binding site 316407011630 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 316407011631 NAD(P) binding site [chemical binding]; other site 316407011632 catalytic residues [active] 316407011633 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 316407011634 FlxA-like protein; Region: FlxA; pfam14282 316407011635 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 316407011636 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407011637 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407011638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407011639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407011640 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 316407011641 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 316407011642 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 316407011643 intersubunit interface [polypeptide binding]; other site 316407011644 active site 316407011645 Zn2+ binding site [ion binding]; other site 316407011646 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 316407011647 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 316407011648 AP (apurinic/apyrimidinic) site pocket; other site 316407011649 DNA interaction; other site 316407011650 Metal-binding active site; metal-binding site 316407011651 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 316407011652 active site 316407011653 dimer interface [polypeptide binding]; other site 316407011654 magnesium binding site [ion binding]; other site 316407011655 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 316407011656 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 316407011657 putative N- and C-terminal domain interface [polypeptide binding]; other site 316407011658 putative active site [active] 316407011659 MgATP binding site [chemical binding]; other site 316407011660 catalytic site [active] 316407011661 metal binding site [ion binding]; metal-binding site 316407011662 putative xylulose binding site [chemical binding]; other site 316407011663 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 316407011664 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 316407011665 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 316407011666 DctM-like transporters; Region: DctM; pfam06808 316407011667 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 316407011668 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 316407011669 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 316407011670 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316407011671 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407011672 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407011673 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 316407011674 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; cl19102 316407011675 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 316407011676 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 316407011677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407011678 homodimer interface [polypeptide binding]; other site 316407011679 catalytic residue [active] 316407011680 alpha-amylase; Reviewed; Region: malS; PRK09505 316407011681 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 316407011682 active site 316407011683 catalytic site [active] 316407011684 hypothetical protein; Provisional; Region: PRK10356 316407011685 Lysozyme subfamily 2; Region: LYZ2; smart00047 316407011686 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 316407011687 putative dimerization interface [polypeptide binding]; other site 316407011688 Transcriptional regulators [Transcription]; Region: PurR; COG1609 316407011689 putative ligand binding site [chemical binding]; other site 316407011690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011691 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407011692 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011693 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 316407011694 TM-ABC transporter signature motif; other site 316407011695 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 316407011696 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407011697 Walker A/P-loop; other site 316407011698 ATP binding site [chemical binding]; other site 316407011699 Q-loop/lid; other site 316407011700 ABC transporter signature motif; other site 316407011701 Walker B; other site 316407011702 D-loop; other site 316407011703 H-loop/switch region; other site 316407011704 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407011705 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 316407011706 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 316407011707 putative ligand binding site [chemical binding]; other site 316407011708 xylose isomerase; Provisional; Region: PRK05474 316407011709 xylulokinase; Provisional; Region: PRK15027 316407011710 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 316407011711 N- and C-terminal domain interface [polypeptide binding]; other site 316407011712 active site 316407011713 MgATP binding site [chemical binding]; other site 316407011714 catalytic site [active] 316407011715 metal binding site [ion binding]; metal-binding site 316407011716 xylulose binding site [chemical binding]; other site 316407011717 homodimer interface [polypeptide binding]; other site 316407011718 hypothetical protein; Provisional; Region: PRK11403 316407011719 yiaA/B two helix domain; Region: YiaAB; pfam05360 316407011720 hypothetical protein; Provisional; Region: PRK11383 316407011721 yiaA/B two helix domain; Region: YiaAB; pfam05360 316407011722 yiaA/B two helix domain; Region: YiaAB; pfam05360 316407011723 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 316407011724 YsaB-like lipoprotein; Region: YsaB; pfam13983 316407011725 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 316407011726 dimer interface [polypeptide binding]; other site 316407011727 motif 1; other site 316407011728 active site 316407011729 motif 2; other site 316407011730 motif 3; other site 316407011731 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 316407011732 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 316407011733 DALR anticodon binding domain; Region: DALR_1; pfam05746 316407011734 anticodon binding site; other site 316407011735 tRNA binding surface [nucleotide binding]; other site 316407011736 putative transposase OrfB; Reviewed; Region: PHA02517 316407011737 HTH-like domain; Region: HTH_21; pfam13276 316407011738 Integrase core domain; Region: rve; pfam00665 316407011739 Integrase core domain; Region: rve_2; pfam13333 316407011740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407011741 Helix-turn-helix domain; Region: HTH_28; pfam13518 316407011742 Helix-turn-helix domain; Region: HTH_28; pfam13518 316407011743 small toxic polypeptide; Provisional; Region: PRK09759 316407011744 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 316407011745 DNA-binding site [nucleotide binding]; DNA binding site 316407011746 RNA-binding motif; other site 316407011747 Predicted transcriptional regulator [Transcription]; Region: COG2944 316407011748 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 316407011749 non-specific DNA binding site [nucleotide binding]; other site 316407011750 salt bridge; other site 316407011751 sequence-specific DNA binding site [nucleotide binding]; other site 316407011752 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 316407011753 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 316407011754 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 316407011755 dimerization interface [polypeptide binding]; other site 316407011756 ligand binding site [chemical binding]; other site 316407011757 NADP binding site [chemical binding]; other site 316407011758 catalytic site [active] 316407011759 putative outer membrane lipoprotein; Provisional; Region: PRK10510 316407011760 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 316407011761 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 316407011762 ligand binding site [chemical binding]; other site 316407011763 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 316407011764 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 316407011765 molybdopterin cofactor binding site [chemical binding]; other site 316407011766 substrate binding site [chemical binding]; other site 316407011767 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 316407011768 molybdopterin cofactor binding site; other site 316407011769 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316407011770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407011771 Coenzyme A binding pocket [chemical binding]; other site 316407011772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316407011773 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 316407011774 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 316407011775 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 316407011776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011777 putative substrate translocation pore; other site 316407011778 phosphoethanolamine transferase; Provisional; Region: PRK11560 316407011779 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316407011780 Sulfatase; Region: Sulfatase; pfam00884 316407011781 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 316407011782 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 316407011783 peptide binding site [polypeptide binding]; other site 316407011784 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 316407011785 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 316407011786 dimer interface [polypeptide binding]; other site 316407011787 conserved gate region; other site 316407011788 putative PBP binding loops; other site 316407011789 ABC-ATPase subunit interface; other site 316407011790 dipeptide transporter; Provisional; Region: PRK10913 316407011791 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 316407011792 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 316407011793 dimer interface [polypeptide binding]; other site 316407011794 conserved gate region; other site 316407011795 putative PBP binding loops; other site 316407011796 ABC-ATPase subunit interface; other site 316407011797 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 316407011798 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407011799 Walker A/P-loop; other site 316407011800 ATP binding site [chemical binding]; other site 316407011801 Q-loop/lid; other site 316407011802 ABC transporter signature motif; other site 316407011803 Walker B; other site 316407011804 D-loop; other site 316407011805 H-loop/switch region; other site 316407011806 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407011807 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 316407011808 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407011809 Walker A/P-loop; other site 316407011810 ATP binding site [chemical binding]; other site 316407011811 Q-loop/lid; other site 316407011812 ABC transporter signature motif; other site 316407011813 Walker B; other site 316407011814 D-loop; other site 316407011815 H-loop/switch region; other site 316407011816 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407011817 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 316407011818 serine transporter; Region: stp; TIGR00814 316407011819 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 316407011820 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 316407011821 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 316407011822 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 316407011823 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 316407011824 ECK3519:JW5941:b3534; cell division protein; chromosome partitioning ATPase 316407011825 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 316407011826 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 316407011827 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 316407011828 DXD motif; other site 316407011829 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 316407011830 PilZ domain; Region: PilZ; pfam07238 316407011831 cellulose synthase regulator protein; Provisional; Region: PRK11114 316407011832 endo-1,4-D-glucanase; Provisional; Region: PRK11097 316407011833 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 316407011834 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 316407011835 binding surface 316407011836 TPR motif; other site 316407011837 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 316407011838 binding surface 316407011839 TPR motif; other site 316407011840 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 316407011841 putative diguanylate cyclase; Provisional; Region: PRK13561 316407011842 HAMP domain; Region: HAMP; pfam00672 316407011843 diguanylate cyclase; Region: GGDEF; smart00267 316407011844 metal binding site [ion binding]; metal-binding site 316407011845 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 316407011846 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 316407011847 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 316407011848 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 316407011849 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 316407011850 substrate binding site [chemical binding]; other site 316407011851 ATP binding site [chemical binding]; other site 316407011852 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 316407011853 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 316407011854 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407011855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011856 metabolite-proton symporter; Region: 2A0106; TIGR00883 316407011857 putative substrate translocation pore; other site 316407011858 inner membrane protein YhjD; Region: TIGR00766 316407011859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 316407011860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407011861 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 316407011862 putative effector binding pocket; other site 316407011863 putative dimerization interface [polypeptide binding]; other site 316407011864 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316407011865 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 316407011866 DNA binding residues [nucleotide binding] 316407011867 dimerization interface [polypeptide binding]; other site 316407011868 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 316407011869 trehalase; Provisional; Region: treF; PRK13270 316407011870 Haem-binding domain; Region: Haem_bd; pfam14376 316407011871 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 316407011872 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 316407011873 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 316407011874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407011875 catalytic residue [active] 316407011876 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 316407011877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011878 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011879 transcriptional regulator YdeO; Provisional; Region: PRK09940 316407011880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407011882 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 316407011883 MMPL family; Region: MMPL; cl14618 316407011884 MMPL family; Region: MMPL; cl14618 316407011885 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 316407011886 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407011887 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407011888 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 316407011889 acid-resistance membrane protein; Provisional; Region: PRK10209 316407011890 acid-resistance protein; Provisional; Region: PRK10208 316407011891 acid-resistance protein; Provisional; Region: hdeB; PRK11566 316407011892 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 316407011893 MgtC family; Region: MgtC; pfam02308 316407011894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316407011895 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 316407011896 DNA binding residues [nucleotide binding] 316407011897 dimerization interface [polypeptide binding]; other site 316407011898 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 316407011899 Transposase domain (DUF772); Region: DUF772; pfam05598 316407011900 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407011901 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407011902 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407011903 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 316407011904 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 316407011905 catalytic residues [active] 316407011906 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 316407011907 Citrate transporter; Region: CitMHS; pfam03600 316407011908 transmembrane helices; other site 316407011909 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 316407011910 dimerization interface [polypeptide binding]; other site 316407011911 putative DNA binding site [nucleotide binding]; other site 316407011912 putative Zn2+ binding site [ion binding]; other site 316407011913 glutathione reductase; Validated; Region: PRK06116 316407011914 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407011915 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 316407011916 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 316407011917 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 316407011918 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 316407011919 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 316407011920 active site 316407011921 Zn binding site [ion binding]; other site 316407011922 putative methyltransferase; Provisional; Region: PRK10742 316407011923 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 316407011924 S-adenosylmethionine binding site [chemical binding]; other site 316407011925 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316407011926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407011927 putative substrate translocation pore; other site 316407011928 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 316407011929 Ligand Binding Site [chemical binding]; other site 316407011930 universal stress protein UspB; Provisional; Region: PRK04960 316407011931 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 316407011932 Predicted flavoproteins [General function prediction only]; Region: COG2081 316407011933 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407011934 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 316407011935 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 316407011936 ECK3474:JW5674:b3489; hypothetical protein 316407011937 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 316407011938 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 316407011939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407011940 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407011941 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 316407011942 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 316407011943 Walker A/P-loop; other site 316407011944 ATP binding site [chemical binding]; other site 316407011945 Q-loop/lid; other site 316407011946 ABC transporter signature motif; other site 316407011947 Walker B; other site 316407011948 D-loop; other site 316407011949 H-loop/switch region; other site 316407011950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407011951 Walker A/P-loop; other site 316407011952 ATP binding site [chemical binding]; other site 316407011953 Q-loop/lid; other site 316407011954 ABC transporter signature motif; other site 316407011955 Walker B; other site 316407011956 D-loop; other site 316407011957 H-loop/switch region; other site 316407011958 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316407011959 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 316407011960 Structural glycoprotein p40/gp41 conserved region; Region: Baculo_gp41; pfam04700 316407011961 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 316407011962 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 316407011963 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 316407011964 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407011965 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407011966 Transposase [DNA replication, recombination, and repair]; Region: COG5433 316407011967 ECK3468:JW5678:b4552; hypothetical protein fragment 316407011968 NTF2 fold immunity protein; Region: Imm-NTF2-2; pfam15631 316407011969 PAAR motif; Region: PAAR_motif; cl15808 316407011970 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407011971 RHS Repeat; Region: RHS_repeat; pfam05593 316407011972 RHS Repeat; Region: RHS_repeat; pfam05593 316407011973 RHS Repeat; Region: RHS_repeat; pfam05593 316407011974 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 316407011975 RHS Repeat; Region: RHS_repeat; pfam05593 316407011976 RHS Repeat; Region: RHS_repeat; pfam05593 316407011977 RHS protein; Region: RHS; pfam03527 316407011978 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 316407011979 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 316407011980 nickel responsive regulator; Provisional; Region: PRK02967 316407011981 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 316407011982 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 316407011983 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407011984 Walker A/P-loop; other site 316407011985 ATP binding site [chemical binding]; other site 316407011986 Q-loop/lid; other site 316407011987 ABC transporter signature motif; other site 316407011988 Walker B; other site 316407011989 D-loop; other site 316407011990 H-loop/switch region; other site 316407011991 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 316407011992 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407011993 Walker A/P-loop; other site 316407011994 ATP binding site [chemical binding]; other site 316407011995 Q-loop/lid; other site 316407011996 ABC transporter signature motif; other site 316407011997 Walker B; other site 316407011998 D-loop; other site 316407011999 H-loop/switch region; other site 316407012000 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407012001 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 316407012002 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 316407012003 dimer interface [polypeptide binding]; other site 316407012004 conserved gate region; other site 316407012005 putative PBP binding loops; other site 316407012006 ABC-ATPase subunit interface; other site 316407012007 nickel transporter permease NikB; Provisional; Region: PRK10352 316407012008 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 316407012009 dimer interface [polypeptide binding]; other site 316407012010 conserved gate region; other site 316407012011 putative PBP binding loops; other site 316407012012 ABC-ATPase subunit interface; other site 316407012013 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 316407012014 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 316407012015 substrate binding site [chemical binding]; other site 316407012016 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 316407012017 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 316407012018 Domain of unknown function DUF20; Region: UPF0118; cl00465 316407012019 major facilitator superfamily transporter; Provisional; Region: PRK05122 316407012020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407012021 putative substrate translocation pore; other site 316407012022 hypothetical protein; Provisional; Region: PRK11615 316407012023 hypothetical protein; Provisional; Region: PRK11212 316407012024 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 316407012025 CPxP motif; other site 316407012026 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 316407012027 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 316407012028 metal-binding site [ion binding] 316407012029 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316407012030 Soluble P-type ATPase [General function prediction only]; Region: COG4087 316407012031 Predicted membrane protein [Function unknown]; Region: COG3714 316407012032 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 316407012033 hypothetical protein; Provisional; Region: PRK10910 316407012034 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 316407012035 S-adenosylmethionine binding site [chemical binding]; other site 316407012036 Mitochondria Localisation Sequence; Region: AIF-MLS; pfam14962 316407012037 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 316407012038 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 316407012039 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 316407012040 P loop; other site 316407012041 GTP binding site [chemical binding]; other site 316407012042 cell division protein FtsE; Provisional; Region: PRK10908 316407012043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407012044 Walker A/P-loop; other site 316407012045 ATP binding site [chemical binding]; other site 316407012046 Q-loop/lid; other site 316407012047 ABC transporter signature motif; other site 316407012048 Walker B; other site 316407012049 D-loop; other site 316407012050 H-loop/switch region; other site 316407012051 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 316407012052 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 316407012053 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 316407012054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407012055 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 316407012056 DNA binding residues [nucleotide binding] 316407012057 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 316407012058 dimerization interface [polypeptide binding]; other site 316407012059 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 316407012060 ligand binding site [chemical binding]; other site 316407012061 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 316407012062 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 316407012063 dimerization interface [polypeptide binding]; other site 316407012064 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 316407012065 ligand binding site [chemical binding]; other site 316407012066 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 316407012067 TM-ABC transporter signature motif; other site 316407012068 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 316407012069 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 316407012070 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 316407012071 TM-ABC transporter signature motif; other site 316407012072 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 316407012073 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 316407012074 Walker A/P-loop; other site 316407012075 ATP binding site [chemical binding]; other site 316407012076 Q-loop/lid; other site 316407012077 ABC transporter signature motif; other site 316407012078 Walker B; other site 316407012079 D-loop; other site 316407012080 H-loop/switch region; other site 316407012081 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 316407012082 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 316407012083 Walker A/P-loop; other site 316407012084 ATP binding site [chemical binding]; other site 316407012085 Q-loop/lid; other site 316407012086 ABC transporter signature motif; other site 316407012087 Walker B; other site 316407012088 D-loop; other site 316407012089 H-loop/switch region; other site 316407012090 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 316407012091 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 316407012092 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 316407012093 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 316407012094 dimer interface [polypeptide binding]; other site 316407012095 conserved gate region; other site 316407012096 putative PBP binding loops; other site 316407012097 ABC-ATPase subunit interface; other site 316407012098 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316407012099 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 316407012100 dimer interface [polypeptide binding]; other site 316407012101 conserved gate region; other site 316407012102 putative PBP binding loops; other site 316407012103 ABC-ATPase subunit interface; other site 316407012104 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 316407012105 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316407012106 Walker A/P-loop; other site 316407012107 ATP binding site [chemical binding]; other site 316407012108 Q-loop/lid; other site 316407012109 ABC transporter signature motif; other site 316407012110 Walker B; other site 316407012111 D-loop; other site 316407012112 H-loop/switch region; other site 316407012113 TOBE domain; Region: TOBE_2; pfam08402 316407012114 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 316407012115 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 316407012116 putative active site [active] 316407012117 catalytic site [active] 316407012118 putative metal binding site [ion binding]; other site 316407012119 hypothetical protein; Provisional; Region: PRK10350 316407012120 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 316407012121 Immunity protein 19; Region: Imm19; pfam15567 316407012122 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 316407012123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407012124 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407012125 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407012126 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 316407012127 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 316407012128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407012129 Coenzyme A binding pocket [chemical binding]; other site 316407012130 putative oxidoreductase; Provisional; Region: PRK10206 316407012131 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407012132 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407012133 Pirin-related protein [General function prediction only]; Region: COG1741 316407012134 Pirin; Region: Pirin; pfam02678 316407012135 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 316407012136 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407012137 DNA binding site [nucleotide binding] 316407012138 domain linker motif; other site 316407012139 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 316407012140 putative ligand binding site [chemical binding]; other site 316407012141 putative dimerization interface [polypeptide binding]; other site 316407012142 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 316407012143 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 316407012144 ATP-binding site [chemical binding]; other site 316407012145 Gluconate-6-phosphate binding site [chemical binding]; other site 316407012146 low affinity gluconate transporter; Provisional; Region: PRK10472 316407012147 GntP family permease; Region: GntP_permease; pfam02447 316407012148 putative antibiotic transporter; Provisional; Region: PRK10739 316407012149 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 316407012150 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 316407012151 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 316407012152 glycogen branching enzyme; Provisional; Region: PRK05402 316407012153 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 316407012154 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 316407012155 active site 316407012156 catalytic site [active] 316407012157 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 316407012158 glycogen debranching enzyme; Provisional; Region: PRK03705 316407012159 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 316407012160 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 316407012161 active site 316407012162 catalytic site [active] 316407012163 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 316407012164 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 316407012165 ligand binding site; other site 316407012166 oligomer interface; other site 316407012167 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 316407012168 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 316407012169 dimer interface [polypeptide binding]; other site 316407012170 N-terminal domain interface [polypeptide binding]; other site 316407012171 sulfate 1 binding site; other site 316407012172 glycogen synthase; Provisional; Region: glgA; PRK00654 316407012173 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 316407012174 ADP-binding pocket [chemical binding]; other site 316407012175 homodimer interface [polypeptide binding]; other site 316407012176 glycogen phosphorylase; Provisional; Region: PRK14986 316407012177 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 316407012178 homodimer interface [polypeptide binding]; other site 316407012179 active site pocket [active] 316407012180 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 316407012181 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 316407012182 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 316407012183 active site residue [active] 316407012184 intramembrane serine protease GlpG; Provisional; Region: PRK10907 316407012185 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 316407012186 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 316407012187 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 316407012188 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407012189 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407012190 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 316407012191 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 316407012192 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 316407012193 Walker A motif; other site 316407012194 ATP binding site [chemical binding]; other site 316407012195 Walker B motif; other site 316407012196 arginine finger; other site 316407012197 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 316407012198 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 316407012199 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 316407012200 RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond. The enzymes are conserved in eucaryotes; Region: RNA_Cyclase; cd00295 316407012201 putative active site [active] 316407012202 adenylation catalytic residue [active] 316407012203 transcriptional regulator MalT; Provisional; Region: PRK04841 316407012204 AAA ATPase domain; Region: AAA_16; pfam13191 316407012205 Cohesin loading factor; Region: Cohesin_load; pfam10345 316407012206 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 316407012207 DNA binding residues [nucleotide binding] 316407012208 dimerization interface [polypeptide binding]; other site 316407012209 maltodextrin phosphorylase; Provisional; Region: PRK14985 316407012210 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 316407012211 homodimer interface [polypeptide binding]; other site 316407012212 active site pocket [active] 316407012213 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 316407012214 4-alpha-glucanotransferase; Region: malQ; TIGR00217 316407012215 high-affinity gluconate transporter; Provisional; Region: PRK14984 316407012216 GntP family permease; Region: GntP_permease; pfam02447 316407012217 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 316407012218 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 316407012219 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 316407012220 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 316407012221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 316407012222 active site 316407012223 carboxylesterase BioH; Provisional; Region: PRK10349 316407012224 Putative lysophospholipase; Region: Hydrolase_4; cl19140 316407012225 Putative lysophospholipase; Region: Hydrolase_4; cl19140 316407012226 putative transposase; Provisional; Region: PRK09857 316407012227 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316407012228 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 316407012229 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 316407012230 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 316407012231 G1 box; other site 316407012232 GTP/Mg2+ binding site [chemical binding]; other site 316407012233 Switch I region; other site 316407012234 G2 box; other site 316407012235 G3 box; other site 316407012236 Switch II region; other site 316407012237 G4 box; other site 316407012238 G5 box; other site 316407012239 Nucleoside recognition; Region: Gate; pfam07670 316407012240 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 316407012241 Nucleoside recognition; Region: Gate; pfam07670 316407012242 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 316407012243 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 316407012244 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 316407012245 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 316407012246 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 316407012247 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 316407012248 RNA binding site [nucleotide binding]; other site 316407012249 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 316407012250 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 316407012251 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 316407012252 osmolarity response regulator; Provisional; Region: ompR; PRK09468 316407012253 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 316407012254 active site 316407012255 phosphorylation site [posttranslational modification] 316407012256 intermolecular recognition site; other site 316407012257 dimerization interface [polypeptide binding]; other site 316407012258 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 316407012259 DNA binding site [nucleotide binding] 316407012260 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 316407012261 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 316407012262 dimerization interface [polypeptide binding]; other site 316407012263 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 316407012264 dimer interface [polypeptide binding]; other site 316407012265 phosphorylation site [posttranslational modification] 316407012266 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 316407012267 ATP binding site [chemical binding]; other site 316407012268 Mg2+ binding site [ion binding]; other site 316407012269 G-X-G motif; other site 316407012270 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 316407012271 active site 316407012272 substrate-binding site [chemical binding]; other site 316407012273 metal-binding site [ion binding] 316407012274 ATP binding site [chemical binding]; other site 316407012275 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 316407012276 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 316407012277 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 316407012278 dimerization interface [polypeptide binding]; other site 316407012279 domain crossover interface; other site 316407012280 redox-dependent activation switch; other site 316407012281 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 316407012282 RNA binding surface [nucleotide binding]; other site 316407012283 GMP/IMP nucleotidase; Provisional; Region: PRK14988 316407012284 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 316407012285 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 316407012286 motif II; other site 316407012287 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 316407012288 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 316407012289 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 316407012290 ADP-ribose binding site [chemical binding]; other site 316407012291 dimer interface [polypeptide binding]; other site 316407012292 active site 316407012293 nudix motif; other site 316407012294 metal binding site [ion binding]; metal-binding site 316407012295 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 316407012296 Transglycosylase; Region: Transgly; pfam00912 316407012297 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 316407012298 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 316407012299 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 316407012300 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 316407012301 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 316407012302 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316407012303 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316407012304 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 316407012305 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 316407012306 ADP binding site [chemical binding]; other site 316407012307 magnesium binding site [ion binding]; other site 316407012308 putative shikimate binding site; other site 316407012309 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 316407012310 active site 316407012311 dimer interface [polypeptide binding]; other site 316407012312 metal binding site [ion binding]; metal-binding site 316407012313 cell division protein DamX; Validated; Region: PRK10905 316407012314 Sporulation related domain; Region: SPOR; pfam05036 316407012315 DNA adenine methylase; Provisional; Region: PRK10904 316407012316 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 316407012317 substrate binding site [chemical binding]; other site 316407012318 hexamer interface [polypeptide binding]; other site 316407012319 metal binding site [ion binding]; metal-binding site 316407012320 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 316407012321 phosphoglycolate phosphatase; Provisional; Region: PRK13222 316407012322 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 316407012323 motif II; other site 316407012324 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 316407012325 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 316407012326 active site 316407012327 HIGH motif; other site 316407012328 dimer interface [polypeptide binding]; other site 316407012329 KMSKS motif; other site 316407012330 Helix-turn-helix domain; Region: HTH_41; pfam14502 316407012331 YhfZ C-terminal domain; Region: YhfZ_C; pfam14503 316407012332 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 316407012333 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 316407012334 dimer interface [polypeptide binding]; other site 316407012335 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 316407012336 active site 316407012337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407012338 substrate binding site [chemical binding]; other site 316407012339 catalytic residue [active] 316407012340 putative mutase; Provisional; Region: PRK12383 316407012341 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 316407012342 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 316407012343 active site 316407012344 substrate binding pocket [chemical binding]; other site 316407012345 homodimer interaction site [polypeptide binding]; other site 316407012346 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 316407012347 Protein of unknown function; Region: YhfT; pfam10797 316407012348 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 316407012349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 316407012350 catalytic residue [active] 316407012351 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 316407012352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407012353 DNA-binding site [nucleotide binding]; DNA binding site 316407012354 UTRA domain; Region: UTRA; pfam07702 316407012355 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 316407012356 substrate binding site [chemical binding]; other site 316407012357 ATP binding site [chemical binding]; other site 316407012358 fructoselysine 3-epimerase; Provisional; Region: PRK09856 316407012359 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 316407012360 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 316407012361 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 316407012362 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 316407012363 dimer interface [polypeptide binding]; other site 316407012364 active site 316407012365 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 316407012366 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407012367 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 316407012368 siroheme synthase; Provisional; Region: cysG; PRK10637 316407012369 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 316407012370 Sirohaem biosynthesis protein central; Region: Sirohm_synth_M; pfam14824 316407012371 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 316407012372 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 316407012373 active site 316407012374 SAM binding site [chemical binding]; other site 316407012375 homodimer interface [polypeptide binding]; other site 316407012376 nitrite transporter NirC; Provisional; Region: PRK11562 316407012377 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 316407012378 nitrite reductase subunit NirD; Provisional; Region: PRK14989 316407012379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 316407012380 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 316407012381 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 316407012382 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 316407012383 putative transporter; Provisional; Region: PRK03699 316407012384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407012385 putative substrate translocation pore; other site 316407012386 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 316407012387 substrate binding site [chemical binding]; other site 316407012388 Protein of unknown function (DUF2559); Region: DUF2559; pfam10832 316407012389 cell filamentation protein Fic; Provisional; Region: PRK10347 316407012390 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 316407012391 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 316407012392 glutamine binding [chemical binding]; other site 316407012393 catalytic triad [active] 316407012394 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 316407012395 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 316407012396 inhibitor-cofactor binding pocket; inhibition site 316407012397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407012398 catalytic residue [active] 316407012399 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 316407012400 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 316407012401 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316407012402 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 316407012403 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 316407012404 ligand binding site [chemical binding]; other site 316407012405 flexible hinge region; other site 316407012406 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 316407012407 putative switch regulator; other site 316407012408 non-specific DNA interactions [nucleotide binding]; other site 316407012409 DNA binding site [nucleotide binding] 316407012410 sequence specific DNA binding site [nucleotide binding]; other site 316407012411 putative cAMP binding site [chemical binding]; other site 316407012412 hypothetical protein; Provisional; Region: PRK10738 316407012413 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 316407012414 active site 316407012415 hypothetical protein; Provisional; Region: PRK04966 316407012416 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 316407012417 putative hydrolase; Provisional; Region: PRK10985 316407012418 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 316407012419 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407012420 ABC transporter; Region: ABC_tran_2; pfam12848 316407012421 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407012422 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 316407012423 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 316407012424 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 316407012425 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 316407012426 TrkA-N domain; Region: TrkA_N; pfam02254 316407012427 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 316407012428 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 316407012429 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 316407012430 phi X174 lysis protein; Provisional; Region: PRK02793 316407012431 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 316407012432 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 316407012433 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316407012434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 316407012435 YheO-like PAS domain; Region: PAS_6; pfam08348 316407012436 HTH domain; Region: HTH_22; pfam13309 316407012437 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 316407012438 sulfur relay protein TusC; Validated; Region: PRK00211 316407012439 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 316407012440 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 316407012441 S17 interaction site [polypeptide binding]; other site 316407012442 S8 interaction site; other site 316407012443 16S rRNA interaction site [nucleotide binding]; other site 316407012444 streptomycin interaction site [chemical binding]; other site 316407012445 23S rRNA interaction site [nucleotide binding]; other site 316407012446 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 316407012447 30S ribosomal protein S7; Validated; Region: PRK05302 316407012448 elongation factor G; Reviewed; Region: PRK00007 316407012449 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 316407012450 G1 box; other site 316407012451 putative GEF interaction site [polypeptide binding]; other site 316407012452 GTP/Mg2+ binding site [chemical binding]; other site 316407012453 Switch I region; other site 316407012454 G2 box; other site 316407012455 G3 box; other site 316407012456 Switch II region; other site 316407012457 G4 box; other site 316407012458 G5 box; other site 316407012459 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 316407012460 Elongation Factor G, domain II; Region: EFG_II; pfam14492 316407012461 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 316407012462 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 316407012463 elongation factor Tu; Reviewed; Region: PRK00049 316407012464 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 316407012465 G1 box; other site 316407012466 GEF interaction site [polypeptide binding]; other site 316407012467 GTP/Mg2+ binding site [chemical binding]; other site 316407012468 Switch I region; other site 316407012469 G2 box; other site 316407012470 G3 box; other site 316407012471 Switch II region; other site 316407012472 G4 box; other site 316407012473 G5 box; other site 316407012474 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 316407012475 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 316407012476 Antibiotic Binding Site [chemical binding]; other site 316407012477 Chitin-binding domain type 3; Region: ChtBD3; smart00495 316407012478 Chitin-binding domain type 3; Region: ChtBD3; smart00495 316407012479 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 316407012480 aromatic chitin/cellulose binding site residues [chemical binding]; other site 316407012481 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 316407012482 active site 316407012483 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 316407012484 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 316407012485 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 316407012486 Ferritin-like domain; Region: Ferritin; pfam00210 316407012487 heme binding site [chemical binding]; other site 316407012488 ferroxidase pore; other site 316407012489 ferroxidase diiron center [ion binding]; other site 316407012490 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 316407012491 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 316407012492 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 316407012493 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 316407012494 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 316407012495 GspL periplasmic domain; Region: GspL_C; pfam12693 316407012496 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 316407012497 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 316407012498 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 316407012499 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 316407012500 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 316407012501 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 316407012502 type II secretion system protein I; Region: gspI; TIGR01707 316407012503 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 316407012504 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 316407012505 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 316407012506 Type II transport protein GspH; Region: GspH; pfam12019 316407012507 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 316407012508 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 316407012509 type II secretion system protein F; Region: GspF; TIGR02120 316407012510 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316407012511 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 316407012512 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 316407012513 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 316407012514 Walker A motif; other site 316407012515 ATP binding site [chemical binding]; other site 316407012516 Walker B motif; other site 316407012517 type II secretion system protein D; Region: type_II_gspD; TIGR02517 316407012518 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316407012519 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316407012520 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 316407012521 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 316407012522 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 316407012523 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 316407012524 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 316407012525 AAA domain; Region: AAA_22; pfam13401 316407012526 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 316407012527 protein secretion protein GspB; Provisional; Region: PRK09697 316407012528 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 316407012529 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 316407012530 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 316407012531 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 316407012532 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 316407012533 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 316407012534 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 316407012535 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 316407012536 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 316407012537 protein-rRNA interface [nucleotide binding]; other site 316407012538 putative translocon binding site; other site 316407012539 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 316407012540 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 316407012541 G-X-X-G motif; other site 316407012542 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 316407012543 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 316407012544 23S rRNA interface [nucleotide binding]; other site 316407012545 5S rRNA interface [nucleotide binding]; other site 316407012546 putative antibiotic binding site [chemical binding]; other site 316407012547 L25 interface [polypeptide binding]; other site 316407012548 L27 interface [polypeptide binding]; other site 316407012549 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 316407012550 23S rRNA interface [nucleotide binding]; other site 316407012551 putative translocon interaction site; other site 316407012552 signal recognition particle (SRP54) interaction site; other site 316407012553 L23 interface [polypeptide binding]; other site 316407012554 trigger factor interaction site; other site 316407012555 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 316407012556 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 316407012557 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 316407012558 RNA binding site [nucleotide binding]; other site 316407012559 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 316407012560 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 316407012561 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 316407012562 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 316407012563 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 316407012564 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 316407012565 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316407012566 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 316407012567 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 316407012568 23S rRNA interface [nucleotide binding]; other site 316407012569 5S rRNA interface [nucleotide binding]; other site 316407012570 L27 interface [polypeptide binding]; other site 316407012571 L5 interface [polypeptide binding]; other site 316407012572 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 316407012573 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 316407012574 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 316407012575 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 316407012576 23S rRNA binding site [nucleotide binding]; other site 316407012577 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 316407012578 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 316407012579 SecY translocase; Region: SecY; pfam00344 316407012580 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 316407012581 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 316407012582 30S ribosomal protein S11; Validated; Region: PRK05309 316407012583 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 316407012584 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 316407012585 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 316407012586 RNA binding surface [nucleotide binding]; other site 316407012587 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 316407012588 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 316407012589 alphaNTD homodimer interface [polypeptide binding]; other site 316407012590 alphaNTD - beta interaction site [polypeptide binding]; other site 316407012591 alphaNTD - beta' interaction site [polypeptide binding]; other site 316407012592 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 316407012593 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 316407012594 hypothetical protein; Provisional; Region: PRK10203 316407012595 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 316407012596 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 316407012597 DNA binding residues [nucleotide binding] 316407012598 dimer interface [polypeptide binding]; other site 316407012599 metal binding site [ion binding]; metal-binding site 316407012600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 316407012601 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 316407012602 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 316407012603 TrkA-N domain; Region: TrkA_N; pfam02254 316407012604 TrkA-C domain; Region: TrkA_C; pfam02080 316407012605 TrkA-N domain; Region: TrkA_N; pfam02254 316407012606 TrkA-C domain; Region: TrkA_C; pfam02080 316407012607 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 316407012608 putative RNA binding site [nucleotide binding]; other site 316407012609 16S rRNA methyltransferase B; Provisional; Region: PRK10901 316407012610 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 316407012611 S-adenosylmethionine binding site [chemical binding]; other site 316407012612 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 316407012613 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 316407012614 putative active site [active] 316407012615 substrate binding site [chemical binding]; other site 316407012616 putative cosubstrate binding site; other site 316407012617 catalytic site [active] 316407012618 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 316407012619 substrate binding site [chemical binding]; other site 316407012620 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 316407012621 active site 316407012622 catalytic residues [active] 316407012623 metal binding site [ion binding]; metal-binding site 316407012624 hypothetical protein; Provisional; Region: PRK10736 316407012625 DNA protecting protein DprA; Region: dprA; TIGR00732 316407012626 hypothetical protein; Validated; Region: PRK03430 316407012627 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316407012628 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 316407012629 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316407012630 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 316407012631 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 316407012632 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 316407012633 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 316407012634 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 316407012635 shikimate binding site; other site 316407012636 NAD(P) binding site [chemical binding]; other site 316407012637 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 316407012638 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 316407012639 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 316407012640 trimer interface [polypeptide binding]; other site 316407012641 putative metal binding site [ion binding]; other site 316407012642 hypothetical protein; Provisional; Region: PRK10039 316407012643 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 316407012644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407012645 Coenzyme A binding pocket [chemical binding]; other site 316407012646 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 316407012647 proposed active site lysine [active] 316407012648 conserved cys residue [active] 316407012649 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 316407012650 active site 316407012651 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 316407012652 tetramer interface [polypeptide binding]; other site 316407012653 active site 316407012654 Mg2+/Mn2+ binding site [ion binding]; other site 316407012655 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 316407012656 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 316407012657 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 316407012658 transcriptional repressor IclR; Provisional; Region: PRK11569 316407012659 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407012660 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407012661 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 316407012662 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 316407012663 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 316407012664 substrate binding pocket [chemical binding]; other site 316407012665 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 316407012666 B12 binding site [chemical binding]; other site 316407012667 cobalt ligand [ion binding]; other site 316407012668 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 316407012669 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 316407012670 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 316407012671 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 316407012672 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 316407012673 active site pocket [active] 316407012674 oxyanion hole [active] 316407012675 catalytic triad [active] 316407012676 active site nucleophile [active] 316407012677 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 316407012678 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 316407012679 RNA binding surface [nucleotide binding]; other site 316407012680 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 316407012681 probable active site [active] 316407012682 hypothetical protein; Provisional; Region: PRK10515 316407012683 aspartate kinase III; Validated; Region: PRK09084 316407012684 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 316407012685 nucleotide binding site [chemical binding]; other site 316407012686 putative catalytic residues [active] 316407012687 aspartate binding site [chemical binding]; other site 316407012688 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 316407012689 lysine allosteric regulatory site; other site 316407012690 dimer interface [polypeptide binding]; other site 316407012691 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 316407012692 dimer interface [polypeptide binding]; other site 316407012693 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 316407012694 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 316407012695 active site 316407012696 dimer interface [polypeptide binding]; other site 316407012697 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 316407012698 dimer interface [polypeptide binding]; other site 316407012699 active site 316407012700 Exopolysaccharide production protein YjbE; Region: YjbE; pfam11106 316407012701 Group 4 capsule polysaccharide formation lipoprotein gfcB; Region: Cap_synth_GfcB; pfam11102 316407012702 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 316407012703 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 316407012704 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 316407012705 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 316407012706 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407012707 putative substrate translocation pore; other site 316407012708 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 316407012709 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 316407012710 dimer interface [polypeptide binding]; other site 316407012711 conserved gate region; other site 316407012712 putative PBP binding loops; other site 316407012713 ABC-ATPase subunit interface; other site 316407012714 maltose transporter membrane protein; Provisional; Region: malF; PRK10999 316407012715 Maltose transport system permease protein MalF P2 domain; Region: MalF_P2; pfam14785 316407012716 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 316407012717 dimer interface [polypeptide binding]; other site 316407012718 conserved gate region; other site 316407012719 putative PBP binding loops; other site 316407012720 ABC-ATPase subunit interface; other site 316407012721 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 316407012722 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 316407012723 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 316407012724 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 316407012725 Walker A/P-loop; other site 316407012726 ATP binding site [chemical binding]; other site 316407012727 Q-loop/lid; other site 316407012728 ABC transporter signature motif; other site 316407012729 Walker B; other site 316407012730 D-loop; other site 316407012731 H-loop/switch region; other site 316407012732 TOBE domain; Region: TOBE_2; pfam08402 316407012733 maltoporin; Provisional; Region: lamB; PRK09360 316407012734 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 316407012735 trimer interface; other site 316407012736 sugar binding site [chemical binding]; other site 316407012737 maltose regulon periplasmic protein; Provisional; Region: PRK10564 316407012738 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 316407012739 SopA-like central domain; Region: SopA; pfam13981 316407012740 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 316407012741 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 316407012742 putative active site [active] 316407012743 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 316407012744 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 316407012745 putative acyl-acceptor binding pocket; other site 316407012746 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 316407012747 putative active site [active] 316407012748 trimer interface [polypeptide binding]; other site 316407012749 putative active site [active] 316407012750 Zn binding site [ion binding]; other site 316407012751 LexA repressor; Validated; Region: PRK00215 316407012752 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 316407012753 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 316407012754 Catalytic site [active] 316407012755 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 316407012756 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 316407012757 hypothetical protein; Provisional; Region: PRK10428 316407012758 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 316407012759 metal binding site 2 [ion binding]; metal-binding site 316407012760 putative DNA binding helix; other site 316407012761 metal binding site 1 [ion binding]; metal-binding site 316407012762 dimer interface [polypeptide binding]; other site 316407012763 structural Zn2+ binding site [ion binding]; other site 316407012764 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 316407012765 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 316407012766 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 316407012767 FMN binding site [chemical binding]; other site 316407012768 active site 316407012769 catalytic residues [active] 316407012770 substrate binding site [chemical binding]; other site 316407012771 phage shock protein G; Reviewed; Region: pspG; PRK09459 316407012772 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 316407012773 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 316407012774 NADP binding site [chemical binding]; other site 316407012775 dimer interface [polypeptide binding]; other site 316407012776 replicative DNA helicase; Provisional; Region: PRK08006 316407012777 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 316407012778 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 316407012779 Walker A motif; other site 316407012780 ATP binding site [chemical binding]; other site 316407012781 Walker B motif; other site 316407012782 DNA binding loops [nucleotide binding] 316407012783 alanine racemase; Reviewed; Region: alr; PRK00053 316407012784 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 316407012785 active site 316407012786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 316407012787 substrate binding site [chemical binding]; other site 316407012788 catalytic residues [active] 316407012789 dimer interface [polypeptide binding]; other site 316407012790 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 316407012791 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 316407012792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407012793 homodimer interface [polypeptide binding]; other site 316407012794 catalytic residue [active] 316407012795 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 316407012796 active site 316407012797 motif I; other site 316407012798 motif II; other site 316407012799 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 316407012800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 316407012801 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 316407012802 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316407012803 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 316407012804 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 316407012805 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 316407012806 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 316407012807 dimer interface [polypeptide binding]; other site 316407012808 ssDNA binding site [nucleotide binding]; other site 316407012809 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316407012810 putative single-stranded DNA-binding protein; Region: PHA01740 316407012811 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 316407012812 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 316407012813 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 316407012814 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 316407012815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407012816 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 316407012817 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 316407012818 DNA binding residues [nucleotide binding] 316407012819 dimer interface [polypeptide binding]; other site 316407012820 [2Fe-2S] cluster binding site [ion binding]; other site 316407012821 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 316407012822 Sulfate transporter family; Region: Sulfate_transp; cl19250 316407012823 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 316407012824 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 316407012825 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316407012826 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316407012827 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316407012828 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 316407012829 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 316407012830 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 316407012831 Na binding site [ion binding]; other site 316407012832 Predicted membrane protein [Function unknown]; Region: COG3162 316407012833 acetyl-CoA synthetase; Provisional; Region: PRK00174 316407012834 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 316407012835 active site 316407012836 CoA binding site [chemical binding]; other site 316407012837 acyl-activating enzyme (AAE) consensus motif; other site 316407012838 AMP binding site [chemical binding]; other site 316407012839 acetate binding site [chemical binding]; other site 316407012840 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 316407012841 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 316407012842 Cytochrome c7; Region: Cytochrome_C7; cl19206 316407012843 Cytochrome c3; Region: Cytochrom_c3_2; pfam14537 316407012844 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 316407012845 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407012846 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 316407012847 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 316407012848 heme lyase subunit NrfE; Provisional; Region: PRK10369 316407012849 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 316407012850 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 316407012851 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 316407012852 binding surface 316407012853 TPR motif; other site 316407012854 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 316407012855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 316407012856 Sel1-like repeats; Region: SEL1; smart00671 316407012857 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 316407012858 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 316407012859 [4Fe-4S] binding site [ion binding]; other site 316407012860 molybdopterin cofactor binding site; other site 316407012861 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 316407012862 molybdopterin cofactor binding site; other site 316407012863 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 316407012864 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 316407012865 Outer membrane efflux protein; Region: OEP; pfam02321 316407012866 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 316407012867 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 316407012868 multidrug resistance protein MdtN; Provisional; Region: PRK10476 316407012869 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 316407012870 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 316407012871 HlyD family secretion protein; Region: HlyD_3; pfam13437 316407012872 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 316407012873 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 316407012874 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 316407012875 Alkyl sulfatase C-terminal; Region: Alkyl_sulf_C; pfam14864 316407012876 Transposase domain (DUF772); Region: DUF772; pfam05598 316407012877 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 316407012878 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 316407012879 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 316407012880 D-allose kinase; Provisional; Region: PRK09698 316407012881 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 316407012882 nucleotide binding site [chemical binding]; other site 316407012883 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 316407012884 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 316407012885 substrate binding site [chemical binding]; other site 316407012886 hexamer interface [polypeptide binding]; other site 316407012887 metal binding site [ion binding]; metal-binding site 316407012888 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 316407012889 TM-ABC transporter signature motif; other site 316407012890 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 316407012891 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407012892 Walker A/P-loop; other site 316407012893 ATP binding site [chemical binding]; other site 316407012894 Q-loop/lid; other site 316407012895 ABC transporter signature motif; other site 316407012896 Walker B; other site 316407012897 D-loop; other site 316407012898 H-loop/switch region; other site 316407012899 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407012900 D-allose transporter subunit; Provisional; Region: PRK09701 316407012901 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 316407012902 ligand binding site [chemical binding]; other site 316407012903 dimerization interface [polypeptide binding]; other site 316407012904 zinc binding site [ion binding]; other site 316407012905 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 316407012906 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 316407012907 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 316407012908 putative active site [active] 316407012909 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 316407012910 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 316407012911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407012912 Coenzyme A binding pocket [chemical binding]; other site 316407012913 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 316407012914 Guanylate kinase; Region: Guanylate_kin; pfam00625 316407012915 active site 316407012916 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 316407012917 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 316407012918 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 316407012919 active site 316407012920 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 316407012921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 316407012922 Walker A/P-loop; other site 316407012923 ATP binding site [chemical binding]; other site 316407012924 Q-loop/lid; other site 316407012925 ABC transporter signature motif; other site 316407012926 Walker B; other site 316407012927 D-loop; other site 316407012928 H-loop/switch region; other site 316407012929 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 316407012930 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 316407012931 Walker A/P-loop; other site 316407012932 ATP binding site [chemical binding]; other site 316407012933 Q-loop/lid; other site 316407012934 ABC transporter signature motif; other site 316407012935 Walker B; other site 316407012936 D-loop; other site 316407012937 H-loop/switch region; other site 316407012938 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 316407012939 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 316407012940 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 316407012941 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 316407012942 Phosphonate metabolizm protein PhnG; Region: PhnG; pfam06754 316407012943 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 316407012944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407012945 DNA-binding site [nucleotide binding]; DNA binding site 316407012946 UTRA domain; Region: UTRA; pfam07702 316407012947 ECK4096:JW4064:b4103; phosphonate/organophosphate ester transporter 316407012948 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 316407012949 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 316407012950 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 316407012951 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 316407012952 Walker A/P-loop; other site 316407012953 ATP binding site [chemical binding]; other site 316407012954 Q-loop/lid; other site 316407012955 ABC transporter signature motif; other site 316407012956 Walker B; other site 316407012957 D-loop; other site 316407012958 H-loop/switch region; other site 316407012959 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 316407012960 dimer interface [polypeptide binding]; other site 316407012961 hypothetical protein; Provisional; Region: PRK10220 316407012962 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 316407012963 PhnA protein; Region: PhnA; pfam03831 316407012964 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 316407012965 G1 box; other site 316407012966 GTP/Mg2+ binding site [chemical binding]; other site 316407012967 G2 box; other site 316407012968 Switch I region; other site 316407012969 G3 box; other site 316407012970 Switch II region; other site 316407012971 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 316407012972 G2 box; other site 316407012973 Switch I region; other site 316407012974 G3 box; other site 316407012975 Switch II region; other site 316407012976 G4 box; other site 316407012977 G5 box; other site 316407012978 YjcZ-like protein; Region: YjcZ; pfam13990 316407012979 proline/glycine betaine transporter; Provisional; Region: PRK10642 316407012980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407012981 putative substrate translocation pore; other site 316407012982 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 316407012983 sensor protein BasS/PmrB; Provisional; Region: PRK10755 316407012984 HAMP domain; Region: HAMP; pfam00672 316407012985 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 316407012986 dimer interface [polypeptide binding]; other site 316407012987 phosphorylation site [posttranslational modification] 316407012988 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 316407012989 ATP binding site [chemical binding]; other site 316407012990 Mg2+ binding site [ion binding]; other site 316407012991 G-X-G motif; other site 316407012992 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 316407012993 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 316407012994 active site 316407012995 phosphorylation site [posttranslational modification] 316407012996 intermolecular recognition site; other site 316407012997 dimerization interface [polypeptide binding]; other site 316407012998 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 316407012999 DNA binding site [nucleotide binding] 316407013000 putative metal dependent hydrolase; Provisional; Region: PRK11598 316407013001 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 316407013002 Sulfatase; Region: Sulfatase; pfam00884 316407013003 arginine:agmatin antiporter; Provisional; Region: PRK10644 316407013004 Spore germination protein; Region: Spore_permease; cl17796 316407013005 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407013006 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013007 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 316407013008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013009 arginine decarboxylase; Provisional; Region: PRK15029 316407013010 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316407013011 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 316407013012 homodimer interface [polypeptide binding]; other site 316407013013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407013014 catalytic residue [active] 316407013015 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316407013016 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 316407013017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013019 alpha-galactosidase; Provisional; Region: PRK15076 316407013020 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 316407013021 NAD binding site [chemical binding]; other site 316407013022 sugar binding site [chemical binding]; other site 316407013023 divalent metal binding site [ion binding]; other site 316407013024 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 316407013025 dimer interface [polypeptide binding]; other site 316407013026 melibiose:sodium symporter; Provisional; Region: PRK10429 316407013027 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 316407013028 hypothetical protein; Provisional; Region: PRK09867 316407013029 fumarate hydratase FumB; Provisional; Region: PRK15391 316407013030 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 316407013031 Fumarase C-terminus; Region: Fumerase_C; pfam05683 316407013032 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 316407013033 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 316407013034 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 316407013035 active site 316407013036 phosphorylation site [posttranslational modification] 316407013037 intermolecular recognition site; other site 316407013038 dimerization interface [polypeptide binding]; other site 316407013039 sensory histidine kinase DcuS; Provisional; Region: PRK11086 316407013040 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 316407013041 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 316407013042 putative active site [active] 316407013043 heme pocket [chemical binding]; other site 316407013044 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 316407013045 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 316407013046 ATP binding site [chemical binding]; other site 316407013047 Mg2+ binding site [ion binding]; other site 316407013048 G-X-G motif; other site 316407013049 Uncharacterized conserved protein [Function unknown]; Region: COG3592 316407013050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407013051 Coenzyme A binding pocket [chemical binding]; other site 316407013052 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 316407013053 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 316407013054 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 316407013055 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 316407013056 dimer interface [polypeptide binding]; other site 316407013057 putative anticodon binding site; other site 316407013058 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 316407013059 motif 1; other site 316407013060 active site 316407013061 motif 2; other site 316407013062 motif 3; other site 316407013063 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 316407013064 POT family; Region: PTR2; cl17359 316407013065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407013066 putative substrate translocation pore; other site 316407013067 lysine decarboxylase CadA; Provisional; Region: PRK15400 316407013068 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 316407013069 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 316407013070 homodimer interface [polypeptide binding]; other site 316407013071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407013072 catalytic residue [active] 316407013073 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 316407013074 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 316407013075 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 316407013076 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 316407013077 DNA binding site [nucleotide binding] 316407013078 putative transcriptional regulator; Provisional; Region: PRK11640 316407013079 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 316407013080 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 316407013081 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 316407013082 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 316407013083 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 316407013084 DsbD alpha interface [polypeptide binding]; other site 316407013085 catalytic residues [active] 316407013086 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 316407013087 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 316407013088 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 316407013089 Aspartase; Region: Aspartase; cd01357 316407013090 active sites [active] 316407013091 tetramer interface [polypeptide binding]; other site 316407013092 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 316407013093 putative transporter; Provisional; Region: PRK11021 316407013094 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407013095 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 316407013096 oligomerisation interface [polypeptide binding]; other site 316407013097 mobile loop; other site 316407013098 roof hairpin; other site 316407013099 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 316407013100 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 316407013101 ring oligomerisation interface [polypeptide binding]; other site 316407013102 ATP/Mg binding site [chemical binding]; other site 316407013103 stacking interactions; other site 316407013104 hinge regions; other site 316407013105 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 316407013106 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 316407013107 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 316407013108 FeS/SAM binding site; other site 316407013109 elongation factor P; Validated; Region: PRK00529 316407013110 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 316407013111 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 316407013112 RNA binding site [nucleotide binding]; other site 316407013113 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 316407013114 RNA binding site [nucleotide binding]; other site 316407013115 entericidin A; Provisional; Region: PRK09810 316407013116 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 316407013117 multidrug efflux system protein; Provisional; Region: PRK11431 316407013118 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 316407013119 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 316407013120 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 316407013121 Iron-sulfur protein interface; other site 316407013122 proximal quinone binding site [chemical binding]; other site 316407013123 C-subunit interface; other site 316407013124 distal quinone binding site; other site 316407013125 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 316407013126 D-subunit interface [polypeptide binding]; other site 316407013127 Iron-sulfur protein interface; other site 316407013128 proximal quinone binding site [chemical binding]; other site 316407013129 distal quinone binding site [chemical binding]; other site 316407013130 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 316407013131 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 316407013132 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 316407013133 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 316407013134 L-aspartate oxidase; Provisional; Region: PRK06175 316407013135 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 316407013136 poxB regulator PoxA; Provisional; Region: PRK09350 316407013137 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 316407013138 motif 1; other site 316407013139 dimer interface [polypeptide binding]; other site 316407013140 active site 316407013141 motif 2; other site 316407013142 motif 3; other site 316407013143 inner membrane transporter YjeM; Provisional; Region: PRK15238 316407013144 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 316407013145 putative mechanosensitive channel protein; Provisional; Region: PRK10929 316407013146 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 316407013147 DNA-binding site [nucleotide binding]; DNA binding site 316407013148 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 316407013149 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 316407013150 Mechanosensitive ion channel; Region: MS_channel; pfam00924 316407013151 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 316407013152 GTPase RsgA; Reviewed; Region: PRK12288 316407013153 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 316407013154 RNA binding site [nucleotide binding]; other site 316407013155 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 316407013156 GTPase/Zn-binding domain interface [polypeptide binding]; other site 316407013157 GTP/Mg2+ binding site [chemical binding]; other site 316407013158 G4 box; other site 316407013159 G5 box; other site 316407013160 G1 box; other site 316407013161 Switch I region; other site 316407013162 G2 box; other site 316407013163 G3 box; other site 316407013164 Switch II region; other site 316407013165 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 316407013166 catalytic site [active] 316407013167 putative active site [active] 316407013168 putative substrate binding site [chemical binding]; other site 316407013169 dimer interface [polypeptide binding]; other site 316407013170 epoxyqueuosine reductase; Region: TIGR00276 316407013171 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 316407013172 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 316407013173 putative carbohydrate kinase; Provisional; Region: PRK10565 316407013174 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 316407013175 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 316407013176 putative substrate binding site [chemical binding]; other site 316407013177 putative ATP binding site [chemical binding]; other site 316407013178 ADP-binding protein; Provisional; Region: PRK10646 316407013179 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 316407013180 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 316407013181 AMIN domain; Region: AMIN; pfam11741 316407013182 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 316407013183 active site 316407013184 metal binding site [ion binding]; metal-binding site 316407013185 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 316407013186 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 316407013187 ATP binding site [chemical binding]; other site 316407013188 Mg2+ binding site [ion binding]; other site 316407013189 G-X-G motif; other site 316407013190 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 316407013191 ATP binding site [chemical binding]; other site 316407013192 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 316407013193 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 316407013194 bacterial Hfq-like; Region: Hfq; cd01716 316407013195 hexamer interface [polypeptide binding]; other site 316407013196 Sm1 motif; other site 316407013197 RNA binding site [nucleotide binding]; other site 316407013198 Sm2 motif; other site 316407013199 GTPase HflX; Provisional; Region: PRK11058 316407013200 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 316407013201 HflX GTPase family; Region: HflX; cd01878 316407013202 G1 box; other site 316407013203 GTP/Mg2+ binding site [chemical binding]; other site 316407013204 Switch I region; other site 316407013205 G2 box; other site 316407013206 G3 box; other site 316407013207 Switch II region; other site 316407013208 G4 box; other site 316407013209 G5 box; other site 316407013210 FtsH protease regulator HflK; Provisional; Region: PRK10930 316407013211 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 316407013212 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 316407013213 HflC protein; Region: hflC; TIGR01932 316407013214 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 316407013215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 316407013216 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 316407013217 GDP-binding site [chemical binding]; other site 316407013218 ACT binding site; other site 316407013219 IMP binding site; other site 316407013220 transcriptional repressor NsrR; Provisional; Region: PRK11014 316407013221 Rrf2 family protein; Region: rrf2_super; TIGR00738 316407013222 exoribonuclease R; Provisional; Region: PRK11642 316407013223 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 316407013224 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 316407013225 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 316407013226 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 316407013227 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 316407013228 RNA binding site [nucleotide binding]; other site 316407013229 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 316407013230 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 316407013231 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 316407013232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 316407013233 PspA/IM30 family; Region: PspA_IM30; pfam04012 316407013234 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 316407013235 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 316407013236 Predicted membrane protein [Function unknown]; Region: COG3766 316407013237 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 316407013238 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 316407013239 Predicted integral membrane protein [Function unknown]; Region: COG5463 316407013240 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 316407013241 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 316407013242 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 316407013243 FAD binding site [chemical binding]; other site 316407013244 substrate binding site [chemical binding]; other site 316407013245 catalytic residues [active] 316407013246 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407013247 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 316407013248 esterase; Provisional; Region: PRK10566 316407013249 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 316407013250 transcriptional repressor UlaR; Provisional; Region: PRK13509 316407013251 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407013252 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407013253 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 316407013254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 316407013255 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 316407013256 active site 316407013257 P-loop; other site 316407013258 phosphorylation site [posttranslational modification] 316407013259 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 316407013260 active site 316407013261 phosphorylation site [posttranslational modification] 316407013262 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 316407013263 active site 316407013264 dimer interface [polypeptide binding]; other site 316407013265 magnesium binding site [ion binding]; other site 316407013266 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 316407013267 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 316407013268 AP (apurinic/apyrimidinic) site pocket; other site 316407013269 DNA interaction; other site 316407013270 Metal-binding active site; metal-binding site 316407013271 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 316407013272 intersubunit interface [polypeptide binding]; other site 316407013273 active site 316407013274 Zn2+ binding site [ion binding]; other site 316407013275 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 316407013276 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 316407013277 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 316407013278 dimer interface [polypeptide binding]; other site 316407013279 ssDNA binding site [nucleotide binding]; other site 316407013280 tetramer (dimer of dimers) interface [polypeptide binding]; other site 316407013281 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 316407013282 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 316407013283 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 316407013284 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 316407013285 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 316407013286 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 316407013287 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 316407013288 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 316407013289 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 316407013290 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 316407013291 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 316407013292 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 316407013293 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 316407013294 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 316407013295 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 316407013296 Hemerythrin-like domain; Region: Hr-like; cd12108 316407013297 Fe binding site [ion binding]; other site 316407013298 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 316407013299 EamA-like transporter family; Region: EamA; pfam00892 316407013300 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 316407013301 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 316407013302 NADP binding site [chemical binding]; other site 316407013303 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 316407013304 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 316407013305 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 316407013306 active site 316407013307 metal binding site [ion binding]; metal-binding site 316407013308 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 316407013309 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 316407013310 active site 316407013311 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 316407013312 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 316407013313 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 316407013314 Domain of unknown function DUF21; Region: DUF21; pfam01595 316407013315 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 316407013316 Transporter associated domain; Region: CorC_HlyC; smart01091 316407013317 methionine sulfoxide reductase A; Provisional; Region: PRK00058 316407013318 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 316407013319 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407013320 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 316407013321 Surface antigen; Region: Bac_surface_Ag; pfam01103 316407013322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 316407013323 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 316407013324 Family of unknown function (DUF490); Region: DUF490; pfam04357 316407013325 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 316407013326 putative active site pocket [active] 316407013327 dimerization interface [polypeptide binding]; other site 316407013328 putative catalytic residue [active] 316407013329 hypothetical protein; Provisional; Region: PRK09719 316407013330 antitoxin ChpS; Provisional; Region: PRK11347 316407013331 toxin ChpB; Provisional; Region: PRK09812 316407013332 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 316407013333 dimer interface [polypeptide binding]; other site 316407013334 substrate binding site [chemical binding]; other site 316407013335 metal binding sites [ion binding]; metal-binding site 316407013336 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 316407013337 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 316407013338 putative ligand binding site [chemical binding]; other site 316407013339 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 316407013340 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 316407013341 Walker A/P-loop; other site 316407013342 ATP binding site [chemical binding]; other site 316407013343 Q-loop/lid; other site 316407013344 ABC transporter signature motif; other site 316407013345 Walker B; other site 316407013346 D-loop; other site 316407013347 H-loop/switch region; other site 316407013348 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 316407013349 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 316407013350 TM-ABC transporter signature motif; other site 316407013351 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 316407013352 TM-ABC transporter signature motif; other site 316407013353 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 316407013354 AMP binding site [chemical binding]; other site 316407013355 metal binding site [ion binding]; metal-binding site 316407013356 active site 316407013357 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 316407013358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 316407013359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 316407013360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 316407013361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 316407013362 peptidase PmbA; Provisional; Region: PRK11040 316407013363 'ECK4231:JW4195:b4236; cytochrome b562, truncated' 316407013364 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 316407013365 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 316407013366 FeS/SAM binding site; other site 316407013367 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 316407013368 ATP cone domain; Region: ATP-cone; pfam03477 316407013369 Class III ribonucleotide reductase; Region: RNR_III; cd01675 316407013370 effector binding site; other site 316407013371 active site 316407013372 Zn binding site [ion binding]; other site 316407013373 glycine loop; other site 316407013374 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 316407013375 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 316407013376 Ca binding site [ion binding]; other site 316407013377 active site 316407013378 catalytic site [active] 316407013379 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 316407013380 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 316407013381 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 316407013382 active site turn [active] 316407013383 phosphorylation site [posttranslational modification] 316407013384 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 316407013385 trehalose repressor; Provisional; Region: treR; PRK09492 316407013386 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407013387 DNA binding site [nucleotide binding] 316407013388 domain linker motif; other site 316407013389 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 316407013390 dimerization interface [polypeptide binding]; other site 316407013391 ligand binding site [chemical binding]; other site 316407013392 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 316407013393 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 316407013394 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 316407013395 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 316407013396 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 316407013397 motif II; other site 316407013398 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 316407013399 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 316407013400 homotrimer interaction site [polypeptide binding]; other site 316407013401 putative active site [active] 316407013402 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 316407013403 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 316407013404 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 316407013405 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 316407013406 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316407013407 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316407013408 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 316407013409 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 316407013410 homotrimer interaction site [polypeptide binding]; other site 316407013411 putative active site [active] 316407013412 oxidoreductase; Provisional; Region: PRK12742 316407013413 classical (c) SDRs; Region: SDR_c; cd05233 316407013414 NAD(P) binding site [chemical binding]; other site 316407013415 active site 316407013416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 316407013417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 316407013418 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 316407013419 SopA-like central domain; Region: SopA; pfam13981 316407013420 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 316407013421 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 316407013422 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 316407013423 RNase E inhibitor protein; Provisional; Region: PRK11191 316407013424 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 316407013425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407013426 Coenzyme A binding pocket [chemical binding]; other site 316407013427 Predicted membrane protein [Function unknown]; Region: COG4269 316407013428 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 316407013429 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 316407013430 active site 316407013431 HIGH motif; other site 316407013432 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 316407013433 KMSKS motif; other site 316407013434 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 316407013435 tRNA binding surface [nucleotide binding]; other site 316407013436 anticodon binding site; other site 316407013437 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 316407013438 DNA polymerase III subunit chi; Validated; Region: PRK05728 316407013439 multifunctional aminopeptidase A; Provisional; Region: PRK00913 316407013440 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 316407013441 interface (dimer of trimers) [polypeptide binding]; other site 316407013442 Substrate-binding/catalytic site; other site 316407013443 Zn-binding sites [ion binding]; other site 316407013444 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 316407013445 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 316407013446 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 316407013447 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 316407013448 Walker A motif; other site 316407013449 ATP binding site [chemical binding]; other site 316407013450 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 316407013451 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 316407013452 DNA binding site [nucleotide binding] 316407013453 domain linker motif; other site 316407013454 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 316407013455 putative dimerization interface [polypeptide binding]; other site 316407013456 putative ligand binding site [chemical binding]; other site 316407013457 gluconate transporter; Region: gntP; TIGR00791 316407013458 GntP family permease; Region: GntP_permease; pfam02447 316407013459 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 316407013460 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 316407013461 NADP binding site [chemical binding]; other site 316407013462 homodimer interface [polypeptide binding]; other site 316407013463 active site 316407013464 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 316407013465 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 316407013466 putative NAD(P) binding site [chemical binding]; other site 316407013467 catalytic Zn binding site [ion binding]; other site 316407013468 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 316407013469 AAA domain; Region: AAA_33; pfam13671 316407013470 ATP-binding site [chemical binding]; other site 316407013471 Gluconate-6-phosphate binding site [chemical binding]; other site 316407013472 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 316407013473 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 316407013474 putative NAD(P) binding site [chemical binding]; other site 316407013475 putative substrate binding site [chemical binding]; other site 316407013476 catalytic Zn binding site [ion binding]; other site 316407013477 structural Zn binding site [ion binding]; other site 316407013478 dimer interface [polypeptide binding]; other site 316407013479 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 316407013480 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 316407013481 active site 316407013482 Int/Topo IB signature motif; other site 316407013483 IS2 repressor TnpA; Reviewed; Region: PRK09413 316407013484 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407013485 IS2 transposase TnpB; Reviewed; Region: PRK09409 316407013486 HTH-like domain; Region: HTH_21; pfam13276 316407013487 Integrase core domain; Region: rve; pfam00665 316407013488 Integrase core domain; Region: rve_3; pfam13683 316407013489 ECK4266:JW5764+JW4234+JW5763:b4575; KpLE2 phage-like element; hypothetical protein 316407013490 'ECK4266:JW5763:b4560; KpLE2 phage-like element; hypothetical protein, C-ter fragment' 316407013491 'ECK4266:JW4234:b4275; KpLE2 phage-like element; hypothetical protein, middle fragment' 316407013492 'ECK4266:JW5764:b4276; KpLE2 phage-like element; hypothetical protein, N-ter fragment' 316407013493 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 316407013494 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 316407013495 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 316407013496 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 316407013497 putative sialic acid transporter; Provisional; Region: PRK12307 316407013498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407013499 putative substrate translocation pore; other site 316407013500 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 316407013501 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 316407013502 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 316407013503 ECK4271:JW5770:b4281; KpLE2 phage-like element; hypothetical protein 316407013504 ECK4272:JW4242:b4282; KpLE2 phage-like element; predicted membrane protein 316407013505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 316407013506 Transposase; Region: HTH_Tnp_1; cl17663 316407013507 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 316407013508 Helix-turn-helix domain; Region: HTH_38; pfam13936 316407013509 Homeodomain-like domain; Region: HTH_32; pfam13565 316407013510 Integrase core domain; Region: rve; pfam00665 316407013511 ECK4273:JW5772:b4561; KpLE2 phage-like element; predicted transposase fragment 316407013512 ECK4274:JW4245:b4285; KpLE2 phage-like element; partial transposase 316407013513 ECK4275:JW5773:b4562; KpLE2 phage-like element; predicted transposase fragment 316407013514 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 316407013515 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 316407013516 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 316407013517 Walker A/P-loop; other site 316407013518 ATP binding site [chemical binding]; other site 316407013519 Q-loop/lid; other site 316407013520 ABC transporter signature motif; other site 316407013521 Walker B; other site 316407013522 D-loop; other site 316407013523 H-loop/switch region; other site 316407013524 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 316407013525 ABC-ATPase subunit interface; other site 316407013526 dimer interface [polypeptide binding]; other site 316407013527 putative PBP binding regions; other site 316407013528 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 316407013529 ABC-ATPase subunit interface; other site 316407013530 dimer interface [polypeptide binding]; other site 316407013531 putative PBP binding regions; other site 316407013532 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 316407013533 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 316407013534 siderophore binding site; other site 316407013535 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 316407013536 Secretin and TonB N terminus short domain; Region: STN; smart00965 316407013537 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 316407013538 N-terminal plug; other site 316407013539 ligand-binding site [chemical binding]; other site 316407013540 fec operon regulator FecR; Reviewed; Region: PRK09774 316407013541 FecR protein; Region: FecR; pfam04773 316407013542 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 316407013543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 316407013544 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 316407013545 DNA binding residues [nucleotide binding] 316407013546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 316407013547 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 316407013548 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 316407013549 ECK0022:JW4255+JW4256:b4576; IS1 transposase InsAB' 316407013550 'ECK0022:JW4255:b4563; IS1 transposase InsAB', N-ter fragment' 316407013551 'ECK0022:JW4256:b4564; IS1 transposase InsAB', C-ter fragment' 316407013552 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 316407013553 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 316407013554 DNA binding residues [nucleotide binding] 316407013555 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 316407013556 gluconate transporter; Region: gntP; TIGR00791 316407013557 GntP family permease; Region: GntP_permease; pfam02447 316407013558 putative dehydratase; Provisional; Region: PRK08211 316407013559 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 316407013560 inhibitor site; inhibition site 316407013561 active site 316407013562 dimer interface [polypeptide binding]; other site 316407013563 catalytic residue [active] 316407013564 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 316407013565 Transcriptional regulator [Transcription]; Region: IclR; COG1414 316407013566 Bacterial transcriptional regulator; Region: IclR; pfam01614 316407013567 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 316407013568 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 316407013569 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 316407013570 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 316407013571 substrate binding site [chemical binding]; other site 316407013572 hexamer interface [polypeptide binding]; other site 316407013573 metal binding site [ion binding]; metal-binding site 316407013574 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 316407013575 active site 316407013576 phosphorylation site [posttranslational modification] 316407013577 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 316407013578 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 316407013579 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 316407013580 active site 316407013581 P-loop; other site 316407013582 phosphorylation site [posttranslational modification] 316407013583 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 316407013584 oligomer interface [polypeptide binding]; other site 316407013585 active site 316407013586 metal binding site [ion binding]; metal-binding site 316407013587 Methyltransferase domain; Region: Methyltransf_31; pfam13847 316407013588 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 316407013589 S-adenosylmethionine binding site [chemical binding]; other site 316407013590 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 316407013591 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 316407013592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407013593 Coenzyme A binding pocket [chemical binding]; other site 316407013594 hypothetical protein; Provisional; Region: PRK13687 316407013595 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 316407013596 AAA domain; Region: AAA_12; pfam13087 316407013597 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 316407013598 putative active site [active] 316407013599 catalytic site [active] 316407013600 Domain of unknown function (DUF303); Region: DUF303; pfam03629 316407013601 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 316407013602 Kelch motif; Region: Kelch_1; pfam01344 316407013603 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 316407013604 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 316407013605 Int/Topo IB signature motif; other site 316407013606 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 316407013607 Int/Topo IB signature motif; other site 316407013608 Fimbrial protein; Region: Fimbrial; cl01416 316407013609 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407013610 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 316407013611 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 316407013612 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 316407013613 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 316407013614 PapC N-terminal domain; Region: PapC_N; pfam13954 316407013615 Outer membrane usher protein; Region: Usher; pfam00577 316407013616 PapC C-terminal domain; Region: PapC_C; pfam13953 316407013617 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407013618 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 316407013619 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 316407013620 mannosyl binding site [chemical binding]; other site 316407013621 Fimbrial protein; Region: Fimbrial; pfam00419 316407013622 fructuronate transporter; Provisional; Region: PRK10034 316407013623 GntP family permease; Region: GntP_permease; pfam02447 316407013624 mannonate dehydratase; Region: uxuA; TIGR00695 316407013625 mannonate dehydratase; Provisional; Region: PRK03906 316407013626 D-mannonate oxidoreductase; Provisional; Region: PRK15037 316407013627 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 316407013628 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 316407013629 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 316407013630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407013631 DNA-binding site [nucleotide binding]; DNA binding site 316407013632 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407013633 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 316407013634 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 316407013635 cell density-dependent motility repressor; Provisional; Region: PRK10082 316407013636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 316407013637 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 316407013638 dimerization interface [polypeptide binding]; other site 316407013639 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 316407013640 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 316407013641 dimer interface [polypeptide binding]; other site 316407013642 active site 316407013643 hypothetical protein; Provisional; Region: PRK10519 316407013644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 316407013645 Nucleoside recognition; Region: Gate; pfam07670 316407013646 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 316407013647 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407013648 Major Facilitator Superfamily; Region: MFS_1; pfam07690 316407013649 putative substrate translocation pore; other site 316407013650 SdiA-regulated; Region: SdiA-regulated; cd09971 316407013651 putative active site [active] 316407013652 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 316407013653 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 316407013654 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 316407013655 Predicted membrane protein [Function unknown]; Region: COG2733 316407013656 Protein of unknown function (DUF445); Region: DUF445; pfam04286 316407013657 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 316407013658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407013659 putative substrate translocation pore; other site 316407013660 ECK4329:JW5953:b4338; predicted transposase 316407013661 Uncharacterized conserved protein [Function unknown]; Region: COG5464 316407013662 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 316407013663 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 316407013664 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 316407013665 DNA-binding site [nucleotide binding]; DNA binding site 316407013666 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 316407013667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 316407013668 homodimer interface [polypeptide binding]; other site 316407013669 catalytic residue [active] 316407013670 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 316407013671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 316407013672 ECK4334:JW5954:b4486; conserved hypothetical protein 316407013673 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 316407013674 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 316407013675 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 316407013676 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 316407013677 Walker A motif; other site 316407013678 ATP binding site [chemical binding]; other site 316407013679 Walker B motif; other site 316407013680 arginine finger; other site 316407013681 endoribonuclease SymE; Provisional; Region: PRK13605 316407013682 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 316407013683 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 316407013684 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 316407013685 HsdM N-terminal domain; Region: HsdM_N; pfam12161 316407013686 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 316407013687 Methyltransferase domain; Region: Methyltransf_26; pfam13659 316407013688 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 316407013689 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 316407013690 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 316407013691 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 316407013692 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 316407013693 ATP binding site [chemical binding]; other site 316407013694 putative Mg++ binding site [ion binding]; other site 316407013695 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 316407013696 nucleotide binding region [chemical binding]; other site 316407013697 ATP-binding site [chemical binding]; other site 316407013698 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 316407013699 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 316407013700 Mrr N-terminal domain; Region: Mrr_N; pfam14338 316407013701 Restriction endonuclease; Region: Mrr_cat; pfam04471 316407013702 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 316407013703 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 316407013704 P-loop, Walker A motif; other site 316407013705 Base recognition motif; other site 316407013706 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 316407013707 Uncharacterized small protein [Function unknown]; Region: COG2879 316407013708 carbon starvation protein A; Provisional; Region: PRK15015 316407013709 Carbon starvation protein CstA; Region: CstA; pfam02554 316407013710 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 316407013711 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 316407013712 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 316407013713 dimer interface [polypeptide binding]; other site 316407013714 ligand binding site [chemical binding]; other site 316407013715 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 316407013716 dimerization interface [polypeptide binding]; other site 316407013717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 316407013718 dimer interface [polypeptide binding]; other site 316407013719 putative CheW interface [polypeptide binding]; other site 316407013720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 316407013721 D-galactonate transporter; Region: 2A0114; TIGR00893 316407013722 putative substrate translocation pore; other site 316407013723 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 316407013724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 316407013725 DNA-binding site [nucleotide binding]; DNA binding site 316407013726 Transcriptional regulators [Transcription]; Region: GntR; COG1802 316407013727 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 316407013728 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 316407013729 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 316407013730 putative NAD(P) binding site [chemical binding]; other site 316407013731 catalytic Zn binding site [ion binding]; other site 316407013732 structural Zn binding site [ion binding]; other site 316407013733 phosphoglycerol transferase I; Provisional; Region: PRK03776 316407013734 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 316407013735 hypothetical protein; Provisional; Region: PRK11667 316407013736 DNA replication protein DnaC; Validated; Region: PRK07952 316407013737 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 316407013738 Walker A motif; other site 316407013739 ATP binding site [chemical binding]; other site 316407013740 Walker B motif; other site 316407013741 primosomal protein DnaI; Provisional; Region: PRK02854 316407013742 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 316407013743 Uncharacterized conserved protein [Function unknown]; Region: COG2966 316407013744 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 316407013745 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 316407013746 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 316407013747 DNA binding residues [nucleotide binding] 316407013748 dimerization interface [polypeptide binding]; other site 316407013749 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 316407013750 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 316407013751 DNA binding residues [nucleotide binding] 316407013752 dimerization interface [polypeptide binding]; other site 316407013753 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 316407013754 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 316407013755 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 316407013756 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 316407013757 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 316407013758 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 316407013759 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 316407013760 S-adenosylmethionine binding site [chemical binding]; other site 316407013761 DNA polymerase III subunit psi; Validated; Region: PRK06856 316407013762 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 316407013763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 316407013764 Coenzyme A binding pocket [chemical binding]; other site 316407013765 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 316407013766 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 316407013767 motif II; other site 316407013768 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 316407013769 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 316407013770 G1 box; other site 316407013771 putative GEF interaction site [polypeptide binding]; other site 316407013772 GTP/Mg2+ binding site [chemical binding]; other site 316407013773 Switch I region; other site 316407013774 G2 box; other site 316407013775 G3 box; other site 316407013776 Switch II region; other site 316407013777 G4 box; other site 316407013778 G5 box; other site 316407013779 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 316407013780 Elongation Factor G, domain II; Region: EFG_II; pfam14492 316407013781 periplasmic protein; Provisional; Region: PRK10568 316407013782 BON domain; Region: BON; pfam04972 316407013783 BON domain; Region: BON; pfam04972 316407013784 Small integral membrane protein [Function unknown]; Region: COG5487 316407013785 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 316407013786 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 316407013787 active site 316407013788 nucleophile elbow; other site 316407013789 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 316407013790 active site 316407013791 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 316407013792 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 316407013793 FeS/SAM binding site; other site 316407013794 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; cl19102 316407013795 hypothetical protein; Provisional; Region: PRK10977 316407013796 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 316407013797 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 316407013798 intersubunit interface [polypeptide binding]; other site 316407013799 active site 316407013800 catalytic residue [active] 316407013801 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 316407013802 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 316407013803 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 316407013804 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 316407013805 phosphopentomutase; Provisional; Region: PRK05362 316407013806 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 316407013807 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 316407013808 HipA-like N-terminal domain; Region: HipA_N; pfam07805 316407013809 HipA-like C-terminal domain; Region: HipA_C; pfam07804 316407013810 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 316407013811 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 316407013812 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 316407013813 hypothetical protein; Provisional; Region: PRK11246 316407013814 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 316407013815 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 316407013816 motif II; other site 316407013817 DNA repair protein RadA; Region: sms; TIGR00416 316407013818 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 316407013819 Walker A motif/ATP binding site; other site 316407013820 ATP binding site [chemical binding]; other site 316407013821 Walker B motif; other site 316407013822 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 316407013823 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 316407013824 non-specific DNA binding site [nucleotide binding]; other site 316407013825 salt bridge; other site 316407013826 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 316407013827 sequence-specific DNA binding site [nucleotide binding]; other site 316407013828 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 316407013829 active site 316407013830 (T/H)XGH motif; other site 316407013831 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 316407013832 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 316407013833 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407013834 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 316407013835 ABC transporter; Region: ABC_tran_2; pfam12848 316407013836 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 316407013837 lytic murein transglycosylase; Provisional; Region: PRK11619 316407013838 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 316407013839 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 316407013840 N-acetyl-D-glucosamine binding site [chemical binding]; other site 316407013841 catalytic residue [active] 316407013842 Trp operon repressor [Transcription]; Region: TrpR; COG2973 316407013843 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 316407013844 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 316407013845 catalytic core [active] 316407013846 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 316407013847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 316407013849 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 316407013850 hypothetical protein; Provisional; Region: PRK10756 316407013851 DNA-binding response regulator CreB; Provisional; Region: PRK11083 316407013852 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 316407013853 active site 316407013854 phosphorylation site [posttranslational modification] 316407013855 intermolecular recognition site; other site 316407013856 dimerization interface [polypeptide binding]; other site 316407013857 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 316407013858 DNA binding site [nucleotide binding] 316407013859 sensory histidine kinase CreC; Provisional; Region: PRK11100 316407013860 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 316407013861 dimerization interface [polypeptide binding]; other site 316407013862 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 316407013863 dimer interface [polypeptide binding]; other site 316407013864 phosphorylation site [posttranslational modification] 316407013865 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 316407013866 ATP binding site [chemical binding]; other site 316407013867 Mg2+ binding site [ion binding]; other site 316407013868 G-X-G motif; other site 316407013869 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 316407013870 two-component response regulator; Provisional; Region: PRK11173 316407013871 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 316407013872 active site 316407013873 phosphorylation site [posttranslational modification] 316407013874 intermolecular recognition site; other site 316407013875 dimerization interface [polypeptide binding]; other site 316407013876 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 316407013877 DNA binding site [nucleotide binding] 316407013878 putative RNA methyltransferase; Provisional; Region: PRK10433 316407013879 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050