-- dump date 20140619_082409 -- class Genbank::misc_feature -- table misc_feature_note -- id note 585057000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 585057000002 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 585057000003 putative catalytic residues [active] 585057000004 putative nucleotide binding site [chemical binding]; other site 585057000005 putative aspartate binding site [chemical binding]; other site 585057000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 585057000007 dimer interface [polypeptide binding]; other site 585057000008 putative threonine allosteric regulatory site; other site 585057000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 585057000010 putative threonine allosteric regulatory site; other site 585057000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 585057000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 585057000013 homoserine kinase; Region: thrB; TIGR00191 585057000014 Protein of unknown function; Region: YhfT; pfam10797 585057000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 585057000016 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 585057000017 threonine synthase; Validated; Region: PRK09225 585057000018 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 585057000019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057000020 catalytic residue [active] 585057000021 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 585057000022 hypothetical protein; Validated; Region: PRK02101 585057000023 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 585057000024 transaldolase-like protein; Provisional; Region: PTZ00411 585057000025 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 585057000026 active site 585057000027 dimer interface [polypeptide binding]; other site 585057000028 catalytic residue [active] 585057000029 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 585057000030 MPT binding site; other site 585057000031 trimer interface [polypeptide binding]; other site 585057000032 hypothetical protein; Provisional; Region: PRK10659 585057000033 hypothetical protein; Provisional; Region: PRK10236 585057000034 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 585057000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 585057000036 hypothetical protein; Provisional; Region: PRK10154 585057000037 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 585057000038 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 585057000039 nucleotide binding site [chemical binding]; other site 585057000040 NEF interaction site [polypeptide binding]; other site 585057000041 SBD interface [polypeptide binding]; other site 585057000042 chaperone protein DnaJ; Provisional; Region: PRK10767 585057000043 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 585057000044 HSP70 interaction site [polypeptide binding]; other site 585057000045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 585057000046 substrate binding site [polypeptide binding]; other site 585057000047 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 585057000048 Zn binding sites [ion binding]; other site 585057000049 dimer interface [polypeptide binding]; other site 585057000050 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 585057000051 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 585057000052 Sulfatase; Region: Sulfatase; pfam00884 585057000053 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057000054 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 585057000055 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 585057000056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057000057 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 585057000058 putative dimerization interface [polypeptide binding]; other site 585057000059 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 585057000060 PapC N-terminal domain; Region: PapC_N; pfam13954 585057000061 Outer membrane usher protein; Region: Usher; pfam00577 585057000062 PapC C-terminal domain; Region: PapC_C; pfam13953 585057000063 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 585057000064 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057000065 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057000066 Fimbrial protein; Region: Fimbrial; cl01416 585057000067 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 585057000068 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 585057000069 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 585057000070 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 585057000071 active site 585057000072 Riboflavin kinase; Region: Flavokinase; smart00904 585057000073 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 585057000074 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 585057000075 active site 585057000076 HIGH motif; other site 585057000077 KMSKS motif; other site 585057000078 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 585057000079 tRNA binding surface [nucleotide binding]; other site 585057000080 anticodon binding site; other site 585057000081 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 585057000082 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 585057000083 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 585057000084 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 585057000085 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 585057000086 Fe-S cluster binding site [ion binding]; other site 585057000087 substrate binding site [chemical binding]; other site 585057000088 catalytic site [active] 585057000089 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 585057000090 active site 585057000091 tetramer interface [polypeptide binding]; other site 585057000092 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 585057000093 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 585057000094 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 585057000095 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 585057000096 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 585057000097 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 585057000098 catalytic site [active] 585057000099 subunit interface [polypeptide binding]; other site 585057000100 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 585057000101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585057000102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 585057000103 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 585057000104 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585057000105 ATP-grasp domain; Region: ATP-grasp_4; cl17255 585057000106 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 585057000107 IMP binding site; other site 585057000108 dimer interface [polypeptide binding]; other site 585057000109 interdomain contacts; other site 585057000110 partial ornithine binding site; other site 585057000111 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 585057000112 carnitine operon protein CaiE; Provisional; Region: PRK13627 585057000113 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 585057000114 putative trimer interface [polypeptide binding]; other site 585057000115 putative metal binding site [ion binding]; other site 585057000116 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 585057000117 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 585057000118 substrate binding site [chemical binding]; other site 585057000119 oxyanion hole (OAH) forming residues; other site 585057000120 trimer interface [polypeptide binding]; other site 585057000121 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 585057000122 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 585057000123 acyl-activating enzyme (AAE) consensus motif; other site 585057000124 putative AMP binding site [chemical binding]; other site 585057000125 putative active site [active] 585057000126 putative CoA binding site [chemical binding]; other site 585057000127 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 585057000128 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 585057000129 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 585057000130 active site 585057000131 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 585057000132 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 585057000133 Ligand binding site [chemical binding]; other site 585057000134 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 585057000135 Electron transfer flavoprotein domain; Region: ETF; pfam01012 585057000136 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 585057000137 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057000138 putative oxidoreductase FixC; Provisional; Region: PRK10157 585057000139 ferredoxin-like protein FixX; Provisional; Region: PRK15449 585057000140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057000141 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 585057000142 putative substrate translocation pore; other site 585057000143 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 585057000144 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 585057000145 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 585057000146 TrkA-N domain; Region: TrkA_N; pfam02254 585057000147 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 585057000148 folate binding site [chemical binding]; other site 585057000149 NADP+ binding site [chemical binding]; other site 585057000150 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 585057000151 CcdB protein; Region: CcdB; pfam01845 585057000152 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 585057000153 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 585057000154 active site 585057000155 metal binding site [ion binding]; metal-binding site 585057000156 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 585057000157 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 585057000158 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 585057000159 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 585057000160 SurA N-terminal domain; Region: SurA_N; pfam09312 585057000161 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 585057000162 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 585057000163 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 585057000164 OstA-like protein; Region: OstA; pfam03968 585057000165 Organic solvent tolerance protein; Region: OstA_C; pfam04453 585057000166 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 585057000167 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 585057000168 putative metal binding site [ion binding]; other site 585057000169 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 585057000170 HSP70 interaction site [polypeptide binding]; other site 585057000171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057000172 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057000173 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057000174 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057000175 HTH-like domain; Region: HTH_21; pfam13276 585057000176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057000177 Integrase core domain; Region: rve; pfam00665 585057000178 Integrase core domain; Region: rve_2; pfam13333 585057000179 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 585057000180 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585057000181 active site 585057000182 ATP-dependent helicase HepA; Validated; Region: PRK04914 585057000183 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 585057000184 ATP binding site [chemical binding]; other site 585057000185 putative Mg++ binding site [ion binding]; other site 585057000186 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 585057000187 nucleotide binding region [chemical binding]; other site 585057000188 ATP-binding site [chemical binding]; other site 585057000189 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 585057000190 DNA polymerase II; Reviewed; Region: PRK05762 585057000191 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 585057000192 active site 585057000193 catalytic site [active] 585057000194 substrate binding site [chemical binding]; other site 585057000195 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 585057000196 active site 585057000197 metal-binding site 585057000198 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 585057000199 intersubunit interface [polypeptide binding]; other site 585057000200 active site 585057000201 Zn2+ binding site [ion binding]; other site 585057000202 L-arabinose isomerase; Provisional; Region: PRK02929 585057000203 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 585057000204 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 585057000205 trimer interface [polypeptide binding]; other site 585057000206 putative substrate binding site [chemical binding]; other site 585057000207 putative metal binding site [ion binding]; other site 585057000208 ribulokinase; Provisional; Region: PRK04123 585057000209 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 585057000210 N- and C-terminal domain interface [polypeptide binding]; other site 585057000211 active site 585057000212 MgATP binding site [chemical binding]; other site 585057000213 catalytic site [active] 585057000214 metal binding site [ion binding]; metal-binding site 585057000215 carbohydrate binding site [chemical binding]; other site 585057000216 homodimer interface [polypeptide binding]; other site 585057000217 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 585057000218 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057000219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057000220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057000221 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585057000222 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 585057000223 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 585057000224 Walker A/P-loop; other site 585057000225 ATP binding site [chemical binding]; other site 585057000226 Q-loop/lid; other site 585057000227 ABC transporter signature motif; other site 585057000228 Walker B; other site 585057000229 D-loop; other site 585057000230 H-loop/switch region; other site 585057000231 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 585057000232 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 585057000233 dimer interface [polypeptide binding]; other site 585057000234 conserved gate region; other site 585057000235 putative PBP binding loops; other site 585057000236 ABC-ATPase subunit interface; other site 585057000237 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 585057000238 dimer interface [polypeptide binding]; other site 585057000239 conserved gate region; other site 585057000240 putative PBP binding loops; other site 585057000241 ABC-ATPase subunit interface; other site 585057000242 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 585057000243 transcriptional regulator SgrR; Provisional; Region: PRK13626 585057000244 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 585057000245 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 585057000246 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 585057000247 substrate binding site [chemical binding]; other site 585057000248 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 585057000249 substrate binding site [chemical binding]; other site 585057000250 ligand binding site [chemical binding]; other site 585057000251 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 585057000252 2-isopropylmalate synthase; Validated; Region: PRK00915 585057000253 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 585057000254 active site 585057000255 catalytic residues [active] 585057000256 metal binding site [ion binding]; metal-binding site 585057000257 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 585057000258 leu operon leader peptide; Provisional; Region: PRK09925 585057000259 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 585057000260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057000261 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 585057000262 putative substrate binding pocket [chemical binding]; other site 585057000263 putative dimerization interface [polypeptide binding]; other site 585057000264 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 585057000265 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 585057000266 PYR/PP interface [polypeptide binding]; other site 585057000267 dimer interface [polypeptide binding]; other site 585057000268 TPP binding site [chemical binding]; other site 585057000269 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 585057000270 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 585057000271 TPP-binding site [chemical binding]; other site 585057000272 dimer interface [polypeptide binding]; other site 585057000273 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 585057000274 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 585057000275 putative valine binding site [chemical binding]; other site 585057000276 dimer interface [polypeptide binding]; other site 585057000277 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 585057000278 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 585057000279 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057000280 DNA binding site [nucleotide binding] 585057000281 domain linker motif; other site 585057000282 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 585057000283 dimerization interface [polypeptide binding]; other site 585057000284 ligand binding site [chemical binding]; other site 585057000285 mraZ protein; Region: TIGR00242 585057000286 MraZ protein; Region: MraZ; pfam02381 585057000287 MraZ protein; Region: MraZ; pfam02381 585057000288 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 585057000289 cell division protein FtsL; Provisional; Region: PRK10772 585057000290 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 585057000291 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 585057000292 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 585057000293 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 585057000294 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 585057000295 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057000296 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057000297 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 585057000298 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 585057000299 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057000300 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057000301 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 585057000302 Mg++ binding site [ion binding]; other site 585057000303 putative catalytic motif [active] 585057000304 putative substrate binding site [chemical binding]; other site 585057000305 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 585057000306 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057000307 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057000308 cell division protein FtsW; Provisional; Region: PRK10774 585057000309 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 585057000310 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 585057000311 active site 585057000312 homodimer interface [polypeptide binding]; other site 585057000313 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 585057000314 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 585057000315 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057000316 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057000317 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 585057000318 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 585057000319 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 585057000320 cell division protein FtsQ; Provisional; Region: PRK10775 585057000321 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 585057000322 Cell division protein FtsQ; Region: FtsQ; pfam03799 585057000323 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 585057000324 Cell division protein FtsA; Region: FtsA; pfam14450 585057000325 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057000326 Cell division protein FtsA; Region: FtsA; pfam14450 585057000327 cell division protein FtsZ; Validated; Region: PRK09330 585057000328 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 585057000329 nucleotide binding site [chemical binding]; other site 585057000330 SulA interaction site; other site 585057000331 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 585057000332 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 585057000333 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 585057000334 SecA regulator SecM; Provisional; Region: PRK02943 585057000335 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 585057000336 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 585057000337 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 585057000338 SEC-C motif; Region: SEC-C; pfam02810 585057000339 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 585057000340 active site 585057000341 8-oxo-dGMP binding site [chemical binding]; other site 585057000342 nudix motif; other site 585057000343 metal binding site [ion binding]; metal-binding site 585057000344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 585057000345 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 585057000346 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 585057000347 CoA-binding site [chemical binding]; other site 585057000348 ATP-binding [chemical binding]; other site 585057000349 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 585057000350 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 585057000351 active site 585057000352 type IV pilin biogenesis protein; Provisional; Region: PRK10573 585057000353 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 585057000354 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 585057000355 hypothetical protein; Provisional; Region: PRK10436 585057000356 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 585057000357 Walker A motif; other site 585057000358 ATP binding site [chemical binding]; other site 585057000359 Walker B motif; other site 585057000360 putative major pilin subunit; Provisional; Region: PRK10574 585057000361 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 585057000362 Pilin (bacterial filament); Region: Pilin; pfam00114 585057000363 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 585057000364 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 585057000365 dimerization interface [polypeptide binding]; other site 585057000366 active site 585057000367 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 585057000368 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 585057000369 amidase catalytic site [active] 585057000370 Zn binding residues [ion binding]; other site 585057000371 substrate binding site [chemical binding]; other site 585057000372 regulatory protein AmpE; Provisional; Region: PRK10987 585057000373 aromatic amino acid transporter; Provisional; Region: PRK10238 585057000374 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057000375 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 585057000376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057000377 DNA-binding site [nucleotide binding]; DNA binding site 585057000378 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057000379 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 585057000380 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 585057000381 dimer interface [polypeptide binding]; other site 585057000382 TPP-binding site [chemical binding]; other site 585057000383 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 585057000384 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 585057000385 E3 interaction surface; other site 585057000386 lipoyl attachment site [posttranslational modification]; other site 585057000387 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 585057000388 E3 interaction surface; other site 585057000389 lipoyl attachment site [posttranslational modification]; other site 585057000390 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 585057000391 E3 interaction surface; other site 585057000392 lipoyl attachment site [posttranslational modification]; other site 585057000393 e3 binding domain; Region: E3_binding; pfam02817 585057000394 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 585057000395 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 585057000396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057000397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057000398 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 585057000399 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 585057000400 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 585057000401 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 585057000402 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 585057000403 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 585057000404 substrate binding site [chemical binding]; other site 585057000405 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 585057000406 substrate binding site [chemical binding]; other site 585057000407 ligand binding site [chemical binding]; other site 585057000408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3112 585057000409 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 585057000410 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 585057000411 S-adenosylmethionine binding site [chemical binding]; other site 585057000412 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 585057000413 multicopper oxidase; Provisional; Region: PRK10965 585057000414 The first Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_1_CueO_FtsP; cd04232 585057000415 Domain 2 interface [polypeptide binding]; other site 585057000416 Domain 3 interface [polypeptide binding]; other site 585057000417 trinuclear Cu binding site [ion binding]; other site 585057000418 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 585057000419 Domain 1 interface [polypeptide binding]; other site 585057000420 Domain 3 interface [polypeptide binding]; other site 585057000421 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 585057000422 Domain 2 interface [polypeptide binding]; other site 585057000423 Domain 1 interface [polypeptide binding]; other site 585057000424 Type 1 (T1) Cu binding site [ion binding]; other site 585057000425 trinuclear Cu binding site [ion binding]; other site 585057000426 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 585057000427 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 585057000428 Trp docking motif [polypeptide binding]; other site 585057000429 putative active site [active] 585057000430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057000431 active site 585057000432 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 585057000433 active site clefts [active] 585057000434 zinc binding site [ion binding]; other site 585057000435 dimer interface [polypeptide binding]; other site 585057000436 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 585057000437 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 585057000438 Walker A/P-loop; other site 585057000439 ATP binding site [chemical binding]; other site 585057000440 Q-loop/lid; other site 585057000441 ABC transporter signature motif; other site 585057000442 Walker B; other site 585057000443 D-loop; other site 585057000444 H-loop/switch region; other site 585057000445 inner membrane transport permease; Provisional; Region: PRK15066 585057000446 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 585057000447 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 585057000448 active pocket/dimerization site; other site 585057000449 active site 585057000450 phosphorylation site [posttranslational modification] 585057000451 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 585057000452 putative active site [active] 585057000453 putative metal binding site [ion binding]; other site 585057000454 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 585057000455 tetramerization interface [polypeptide binding]; other site 585057000456 active site 585057000457 Uncharacterized conserved protein [Function unknown]; Region: COG5464 585057000458 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 585057000459 Pantoate-beta-alanine ligase; Region: PanC; cd00560 585057000460 active site 585057000461 ATP-binding site [chemical binding]; other site 585057000462 pantoate-binding site; other site 585057000463 HXXH motif; other site 585057000464 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 585057000465 oligomerization interface [polypeptide binding]; other site 585057000466 active site 585057000467 metal binding site [ion binding]; metal-binding site 585057000468 fragment of putative fimbrial-like adhesin exported protein (part 2);Evidence 7 : Gene remnant; Product type ps : putative structure 585057000469 Transposase; Region: HTH_Tnp_1; cl17663 585057000470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057000471 putative transposase OrfB; Reviewed; Region: PHA02517 585057000472 HTH-like domain; Region: HTH_21; pfam13276 585057000473 Integrase core domain; Region: rve; pfam00665 585057000474 Integrase core domain; Region: rve_3; pfam13683 585057000475 fragment of putative fimbrial-like adhesin exported protein (part 1);Evidence 7 : Gene remnant; Product type ps : putative structure 585057000476 putative fimbrial protein StaF; Provisional; Region: PRK15262 585057000477 putative fimbrial protein StaE; Provisional; Region: PRK15263 585057000478 Fimbrial protein; Region: Fimbrial; cl01416 585057000479 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 585057000480 PapC N-terminal domain; Region: PapC_N; pfam13954 585057000481 Outer membrane usher protein; Region: Usher; pfam00577 585057000482 PapC C-terminal domain; Region: PapC_C; pfam13953 585057000483 putative chaperone protein EcpD; Provisional; Region: PRK09926 585057000484 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057000485 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057000486 Fimbrial protein; Region: Fimbrial; cl01416 585057000487 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 585057000488 catalytic center binding site [active] 585057000489 ATP binding site [chemical binding]; other site 585057000490 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 585057000491 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 585057000492 active site 585057000493 NTP binding site [chemical binding]; other site 585057000494 metal binding triad [ion binding]; metal-binding site 585057000495 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 585057000496 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 585057000497 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 585057000498 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 585057000499 active site 585057000500 nucleotide binding site [chemical binding]; other site 585057000501 HIGH motif; other site 585057000502 KMSKS motif; other site 585057000503 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 585057000504 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 585057000505 2'-5' RNA ligase; Provisional; Region: PRK15124 585057000506 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 585057000507 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 585057000508 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 585057000509 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 585057000510 ATP binding site [chemical binding]; other site 585057000511 putative Mg++ binding site [ion binding]; other site 585057000512 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 585057000513 nucleotide binding region [chemical binding]; other site 585057000514 ATP-binding site [chemical binding]; other site 585057000515 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 585057000516 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 585057000517 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 585057000518 Transmembrane domain of transglycosylase PBP1 at N-terminal; Region: PBP1_TM; pfam14812 585057000519 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 585057000520 Transglycosylase; Region: Transgly; pfam00912 585057000521 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 585057000522 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 585057000523 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 585057000524 N-terminal plug; other site 585057000525 ligand-binding site [chemical binding]; other site 585057000526 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 585057000527 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057000528 Walker A/P-loop; other site 585057000529 ATP binding site [chemical binding]; other site 585057000530 Q-loop/lid; other site 585057000531 ABC transporter signature motif; other site 585057000532 Walker B; other site 585057000533 D-loop; other site 585057000534 H-loop/switch region; other site 585057000535 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 585057000536 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 585057000537 siderophore binding site; other site 585057000538 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 585057000539 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 585057000540 ABC-ATPase subunit interface; other site 585057000541 dimer interface [polypeptide binding]; other site 585057000542 putative PBP binding regions; other site 585057000543 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 585057000544 ABC-ATPase subunit interface; other site 585057000545 dimer interface [polypeptide binding]; other site 585057000546 putative PBP binding regions; other site 585057000547 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 585057000548 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 585057000549 inhibitor-cofactor binding pocket; inhibition site 585057000550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057000551 catalytic residue [active] 585057000552 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 585057000553 Cl- selectivity filter; other site 585057000554 Cl- binding residues [ion binding]; other site 585057000555 pore gating glutamate residue; other site 585057000556 dimer interface [polypeptide binding]; other site 585057000557 H+/Cl- coupling transport residue; other site 585057000558 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 585057000559 hypothetical protein; Provisional; Region: PRK10578 585057000560 UPF0126 domain; Region: UPF0126; pfam03458 585057000561 UPF0126 domain; Region: UPF0126; pfam03458 585057000562 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 585057000563 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 585057000564 cobalamin binding residues [chemical binding]; other site 585057000565 putative BtuC binding residues; other site 585057000566 dimer interface [polypeptide binding]; other site 585057000567 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 585057000568 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 585057000569 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057000570 Zn2+ binding site [ion binding]; other site 585057000571 Mg2+ binding site [ion binding]; other site 585057000572 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 585057000573 serine endoprotease; Provisional; Region: PRK10942 585057000574 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 585057000575 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 585057000576 protein binding site [polypeptide binding]; other site 585057000577 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 585057000578 protein binding site [polypeptide binding]; other site 585057000579 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 585057000580 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 585057000581 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 585057000582 hypothetical protein; Provisional; Region: PRK13677 585057000583 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 585057000584 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 585057000585 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 585057000586 trimer interface [polypeptide binding]; other site 585057000587 active site 585057000588 substrate binding site [chemical binding]; other site 585057000589 CoA binding site [chemical binding]; other site 585057000590 PII uridylyl-transferase; Provisional; Region: PRK05007 585057000591 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 585057000592 metal binding triad; other site 585057000593 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 585057000594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057000595 Zn2+ binding site [ion binding]; other site 585057000596 Mg2+ binding site [ion binding]; other site 585057000597 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 585057000598 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 585057000599 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 585057000600 active site 585057000601 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 585057000602 rRNA interaction site [nucleotide binding]; other site 585057000603 S8 interaction site; other site 585057000604 putative laminin-1 binding site; other site 585057000605 elongation factor Ts; Provisional; Region: tsf; PRK09377 585057000606 UBA/TS-N domain; Region: UBA; pfam00627 585057000607 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 585057000608 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 585057000609 putative nucleotide binding site [chemical binding]; other site 585057000610 uridine monophosphate binding site [chemical binding]; other site 585057000611 homohexameric interface [polypeptide binding]; other site 585057000612 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 585057000613 hinge region; other site 585057000614 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 585057000615 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 585057000616 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 585057000617 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 585057000618 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 585057000619 active site 585057000620 dimer interface [polypeptide binding]; other site 585057000621 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 585057000622 zinc metallopeptidase RseP; Provisional; Region: PRK10779 585057000623 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 585057000624 active site 585057000625 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 585057000626 protein binding site [polypeptide binding]; other site 585057000627 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 585057000628 protein binding site [polypeptide binding]; other site 585057000629 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 585057000630 putative substrate binding region [chemical binding]; other site 585057000631 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 585057000632 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057000633 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057000634 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057000635 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057000636 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057000637 Surface antigen; Region: Bac_surface_Ag; pfam01103 585057000638 periplasmic chaperone; Provisional; Region: PRK10780 585057000639 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 585057000640 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 585057000641 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 585057000642 trimer interface [polypeptide binding]; other site 585057000643 active site 585057000644 UDP-GlcNAc binding site [chemical binding]; other site 585057000645 lipid binding site [chemical binding]; lipid-binding site 585057000646 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 585057000647 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 585057000648 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 585057000649 active site 585057000650 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 585057000651 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 585057000652 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 585057000653 RNA/DNA hybrid binding site [nucleotide binding]; other site 585057000654 active site 585057000655 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 585057000656 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 585057000657 putative active site [active] 585057000658 putative PHP Thumb interface [polypeptide binding]; other site 585057000659 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 585057000660 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 585057000661 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 585057000662 generic binding surface II; other site 585057000663 generic binding surface I; other site 585057000664 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 585057000665 lysine decarboxylase LdcC; Provisional; Region: PRK15399 585057000666 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 585057000667 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 585057000668 homodimer interface [polypeptide binding]; other site 585057000669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057000670 catalytic residue [active] 585057000671 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 585057000672 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 585057000673 putative metal binding site [ion binding]; other site 585057000674 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 585057000675 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 585057000676 Ligand Binding Site [chemical binding]; other site 585057000677 TilS substrate binding domain; Region: TilS; pfam09179 585057000678 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 585057000679 HTH-like domain; Region: HTH_21; pfam13276 585057000680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057000681 Integrase core domain; Region: rve; pfam00665 585057000682 Integrase core domain; Region: rve_2; pfam13333 585057000683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057000684 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057000685 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057000686 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057000687 inosine/guanosine kinase; Provisional; Region: PRK15074 585057000688 adenosine kinase; Provisional; Region: PTZ00247 585057000689 substrate binding site [chemical binding]; other site 585057000690 ATP binding site [chemical binding]; other site 585057000691 acetyl esterase; Provisional; Region: PRK10162 585057000692 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 585057000693 ferrochelatase; Region: hemH; TIGR00109 585057000694 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 585057000695 C-terminal domain interface [polypeptide binding]; other site 585057000696 active site 585057000697 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 585057000698 active site 585057000699 N-terminal domain interface [polypeptide binding]; other site 585057000700 adenylate kinase; Reviewed; Region: adk; PRK00279 585057000701 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 585057000702 AMP-binding site [chemical binding]; other site 585057000703 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 585057000704 heat shock protein 90; Provisional; Region: PRK05218 585057000705 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 585057000706 ATP binding site [chemical binding]; other site 585057000707 Mg2+ binding site [ion binding]; other site 585057000708 G-X-G motif; other site 585057000709 Hsp90 protein; Region: HSP90; pfam00183 585057000710 recombination protein RecR; Reviewed; Region: recR; PRK00076 585057000711 RecR protein; Region: RecR; pfam02132 585057000712 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 585057000713 putative active site [active] 585057000714 putative metal-binding site [ion binding]; other site 585057000715 tetramer interface [polypeptide binding]; other site 585057000716 hypothetical protein; Validated; Region: PRK00153 585057000717 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 585057000718 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 585057000719 Walker A motif; other site 585057000720 ATP binding site [chemical binding]; other site 585057000721 Walker B motif; other site 585057000722 DNA polymerase III subunit delta'; Validated; Region: PRK08485 585057000723 arginine finger; other site 585057000724 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 585057000725 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 585057000726 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 585057000727 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057000728 active site 585057000729 hypothetical protein; Provisional; Region: PRK10527 585057000730 primosomal replication protein N''; Provisional; Region: PRK10093 585057000731 hypothetical protein; Provisional; Region: PRK11038 585057000732 hypothetical protein; Provisional; Region: PRK11281 585057000733 FSIP1 family; Region: FSIP1; pfam15554 585057000734 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 585057000735 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057000736 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 585057000737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057000738 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 585057000739 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 585057000740 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057000741 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057000742 fragment of multidrug efflux system protein (part 1);Evidence 7 : Gene remnant; Product type t : transporter 585057000743 putative transposase OrfB; Reviewed; Region: PHA02517 585057000744 HTH-like domain; Region: HTH_21; pfam13276 585057000745 Integrase core domain; Region: rve; pfam00665 585057000746 Integrase core domain; Region: rve_3; pfam13683 585057000747 Transposase; Region: HTH_Tnp_1; cl17663 585057000748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057000749 fragment of multidrug efflux system protein (part 2);Evidence 7 : Gene remnant; Product type t : transporter 585057000750 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 585057000751 gene expression modulator; Provisional; Region: PRK10945 585057000752 maltose O-acetyltransferase; Provisional; Region: PRK10092 585057000753 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 585057000754 active site 585057000755 substrate binding site [chemical binding]; other site 585057000756 trimer interface [polypeptide binding]; other site 585057000757 CoA binding site [chemical binding]; other site 585057000758 Inner membrane protein YlaC; Region: YlaC; pfam10777 585057000759 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 585057000760 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057000761 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 585057000762 Uncharacterized conserved protein [Function unknown]; Region: COG5507 585057000763 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 585057000764 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 585057000765 DNA binding site [nucleotide binding] 585057000766 active site 585057000767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 585057000768 acyl-CoA thioesterase II; Provisional; Region: PRK10526 585057000769 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 585057000770 active site 585057000771 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 585057000772 catalytic triad [active] 585057000773 dimer interface [polypeptide binding]; other site 585057000774 ammonium transporter; Provisional; Region: PRK10666 585057000775 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 585057000776 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 585057000777 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057000778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057000779 Walker A/P-loop; other site 585057000780 ATP binding site [chemical binding]; other site 585057000781 Q-loop/lid; other site 585057000782 ABC transporter signature motif; other site 585057000783 Walker B; other site 585057000784 D-loop; other site 585057000785 H-loop/switch region; other site 585057000786 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057000787 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 585057000788 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057000789 Walker A/P-loop; other site 585057000790 ATP binding site [chemical binding]; other site 585057000791 Q-loop/lid; other site 585057000792 ABC transporter signature motif; other site 585057000793 Walker B; other site 585057000794 D-loop; other site 585057000795 H-loop/switch region; other site 585057000796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 585057000797 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 585057000798 putative DNA binding site [nucleotide binding]; other site 585057000799 putative Zn2+ binding site [ion binding]; other site 585057000800 AsnC family; Region: AsnC_trans_reg; pfam01037 585057000801 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 585057000802 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 585057000803 active site 585057000804 motif I; other site 585057000805 motif II; other site 585057000806 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057000807 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 585057000808 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 585057000809 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 585057000810 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 585057000811 Ligand Binding Site [chemical binding]; other site 585057000812 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 585057000813 active site 585057000814 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 585057000815 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 585057000816 periplasmic folding chaperone; Provisional; Region: PRK10788 585057000817 SurA N-terminal domain; Region: SurA_N_3; cl07813 585057000818 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 585057000819 histone-like DNA-binding protein HU; Region: HU; cd13831 585057000820 dimer interface [polypeptide binding]; other site 585057000821 DNA binding site [nucleotide binding] 585057000822 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 585057000823 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 585057000824 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 585057000825 Walker A motif; other site 585057000826 ATP binding site [chemical binding]; other site 585057000827 Walker B motif; other site 585057000828 arginine finger; other site 585057000829 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 585057000830 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 585057000831 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 585057000832 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 585057000833 Walker A motif; other site 585057000834 ATP binding site [chemical binding]; other site 585057000835 Walker B motif; other site 585057000836 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 585057000837 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 585057000838 oligomer interface [polypeptide binding]; other site 585057000839 active site residues [active] 585057000840 trigger factor; Provisional; Region: tig; PRK01490 585057000841 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 585057000842 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 585057000843 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 585057000844 transcriptional regulator BolA; Provisional; Region: PRK11628 585057000845 hypothetical protein; Provisional; Region: PRK11627 585057000846 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057000847 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057000848 putative substrate translocation pore; other site 585057000849 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 585057000850 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 585057000851 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 585057000852 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 585057000853 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 585057000854 D-pathway; other site 585057000855 Putative ubiquinol binding site [chemical binding]; other site 585057000856 Low-spin heme (heme b) binding site [chemical binding]; other site 585057000857 Putative water exit pathway; other site 585057000858 Binuclear center (heme o3/CuB) [ion binding]; other site 585057000859 K-pathway; other site 585057000860 Putative proton exit pathway; other site 585057000861 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 585057000862 Subunit I/III interface [polypeptide binding]; other site 585057000863 Subunit III/IV interface [polypeptide binding]; other site 585057000864 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 585057000865 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 585057000866 putative active site [active] 585057000867 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 585057000868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 585057000869 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 585057000870 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585057000871 Sel1 repeat; Region: Sel1; pfam08238 585057000872 Sel1-like repeats; Region: SEL1; smart00671 585057000873 Sel1-like repeats; Region: SEL1; smart00671 585057000874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057000875 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057000876 putative substrate translocation pore; other site 585057000877 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 585057000878 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 585057000879 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 585057000880 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 585057000881 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 585057000882 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 585057000883 conserved cys residue [active] 585057000884 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 585057000885 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 585057000886 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 585057000887 Ligand Binding Site [chemical binding]; other site 585057000888 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 585057000889 active site residue [active] 585057000890 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 585057000891 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 585057000892 substrate binding pocket [chemical binding]; other site 585057000893 chain length determination region; other site 585057000894 active site lid residues [active] 585057000895 substrate-Mg2+ binding site; other site 585057000896 catalytic residues [active] 585057000897 aspartate-rich region 1; other site 585057000898 aspartate-rich region 2; other site 585057000899 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 585057000900 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 585057000901 TPP-binding site; other site 585057000902 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 585057000903 PYR/PP interface [polypeptide binding]; other site 585057000904 dimer interface [polypeptide binding]; other site 585057000905 TPP binding site [chemical binding]; other site 585057000906 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585057000907 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 585057000908 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057000909 active site 585057000910 catalytic tetrad [active] 585057000911 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 585057000912 tetramer interfaces [polypeptide binding]; other site 585057000913 binuclear metal-binding site [ion binding]; other site 585057000914 thiamine monophosphate kinase; Provisional; Region: PRK05731 585057000915 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 585057000916 ATP binding site [chemical binding]; other site 585057000917 dimerization interface [polypeptide binding]; other site 585057000918 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 585057000919 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 585057000920 homopentamer interface [polypeptide binding]; other site 585057000921 active site 585057000922 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 585057000923 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 585057000924 catalytic motif [active] 585057000925 Zn binding site [ion binding]; other site 585057000926 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 585057000927 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 585057000928 ATP cone domain; Region: ATP-cone; pfam03477 585057000929 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 585057000930 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 585057000931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 585057000932 Probable transposase; Region: OrfB_IS605; pfam01385 585057000933 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 585057000934 Transposase IS200 like; Region: Y1_Tnp; pfam01797 585057000935 fragment of putative lipoprotein (partial);Evidence 7 : Gene remnant; Product type lp : lipoprotein 585057000936 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 585057000937 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 585057000938 active site 585057000939 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 585057000940 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 585057000941 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 585057000942 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 585057000943 Protein export membrane protein; Region: SecD_SecF; pfam02355 585057000944 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 585057000945 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 585057000946 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 585057000947 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 585057000948 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 585057000949 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 585057000950 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 585057000951 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 585057000952 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 585057000953 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 585057000954 maltodextrin glucosidase; Provisional; Region: PRK10785 585057000955 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 585057000956 homodimer interface [polypeptide binding]; other site 585057000957 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 585057000958 active site 585057000959 homodimer interface [polypeptide binding]; other site 585057000960 catalytic site [active] 585057000961 putative proline-specific permease; Provisional; Region: proY; PRK10580 585057000962 Spore germination protein; Region: Spore_permease; cl17796 585057000963 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 585057000964 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 585057000965 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 585057000966 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 585057000967 putative active site [active] 585057000968 heme pocket [chemical binding]; other site 585057000969 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 585057000970 dimer interface [polypeptide binding]; other site 585057000971 phosphorylation site [posttranslational modification] 585057000972 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 585057000973 ATP binding site [chemical binding]; other site 585057000974 Mg2+ binding site [ion binding]; other site 585057000975 G-X-G motif; other site 585057000976 transcriptional regulator PhoB; Provisional; Region: PRK10161 585057000977 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 585057000978 active site 585057000979 phosphorylation site [posttranslational modification] 585057000980 intermolecular recognition site; other site 585057000981 dimerization interface [polypeptide binding]; other site 585057000982 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 585057000983 DNA binding site [nucleotide binding] 585057000984 exonuclease subunit SbcD; Provisional; Region: PRK10966 585057000985 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 585057000986 active site 585057000987 metal binding site [ion binding]; metal-binding site 585057000988 DNA binding site [nucleotide binding] 585057000989 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 585057000990 exonuclease subunit SbcC; Provisional; Region: PRK10246 585057000991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057000992 Walker A/P-loop; other site 585057000993 ATP binding site [chemical binding]; other site 585057000994 Q-loop/lid; other site 585057000995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057000996 ABC transporter signature motif; other site 585057000997 Walker B; other site 585057000998 D-loop; other site 585057000999 H-loop/switch region; other site 585057001000 MFS transport protein AraJ; Provisional; Region: PRK10091 585057001001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057001002 putative substrate translocation pore; other site 585057001003 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057001004 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057001005 nucleotide binding site [chemical binding]; other site 585057001006 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 585057001007 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 585057001008 hypothetical protein; Provisional; Region: PRK10579 585057001009 hypothetical protein; Provisional; Region: PRK10481 585057001010 hypothetical protein; Provisional; Region: PRK10380 585057001011 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 585057001012 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 585057001013 ADP binding site [chemical binding]; other site 585057001014 magnesium binding site [ion binding]; other site 585057001015 putative shikimate binding site; other site 585057001016 hypothetical protein; Validated; Region: PRK00124 585057001017 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 585057001018 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 585057001019 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 585057001020 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 585057001021 MASE2 domain; Region: MASE2; pfam05230 585057001022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057001023 metal binding site [ion binding]; metal-binding site 585057001024 active site 585057001025 I-site; other site 585057001026 hypothetical protein; Provisional; Region: PRK11505 585057001027 psiF repeat; Region: PsiF_repeat; pfam07769 585057001028 psiF repeat; Region: PsiF_repeat; pfam07769 585057001029 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 585057001030 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 585057001031 dimer interface [polypeptide binding]; other site 585057001032 active site 585057001033 anti-RssB factor; Provisional; Region: PRK10244 585057001034 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 585057001035 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 585057001036 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 585057001037 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 585057001038 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 585057001039 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 585057001040 microcin B17 transporter; Reviewed; Region: PRK11098 585057001041 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 585057001042 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 585057001043 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 585057001044 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 585057001045 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 585057001046 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585057001047 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 585057001048 dimer interface [polypeptide binding]; other site 585057001049 active site 585057001050 Schiff base residues; other site 585057001051 Transposase; Region: HTH_Tnp_1; cl17663 585057001052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001053 putative transposase OrfB; Reviewed; Region: PHA02517 585057001054 HTH-like domain; Region: HTH_21; pfam13276 585057001055 Integrase core domain; Region: rve; pfam00665 585057001056 Integrase core domain; Region: rve_3; pfam13683 585057001057 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 585057001058 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 585057001059 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 585057001060 active site 585057001061 iron coordination sites [ion binding]; other site 585057001062 substrate binding pocket [chemical binding]; other site 585057001063 fragment of taurine transporter subunit ; membrane component of ABC superfamily (partial);Evidence 7 : Gene remnant; Product type t : transporter 585057001064 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 585057001065 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 585057001066 Walker A/P-loop; other site 585057001067 ATP binding site [chemical binding]; other site 585057001068 Q-loop/lid; other site 585057001069 ABC transporter signature motif; other site 585057001070 Walker B; other site 585057001071 D-loop; other site 585057001072 H-loop/switch region; other site 585057001073 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 585057001074 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 585057001075 substrate binding pocket [chemical binding]; other site 585057001076 membrane-bound complex binding site; other site 585057001077 hinge residues; other site 585057001078 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 585057001079 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 585057001080 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 585057001081 DXD motif; other site 585057001082 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 585057001083 putative trimer interface [polypeptide binding]; other site 585057001084 putative CoA binding site [chemical binding]; other site 585057001085 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 585057001086 putative metal binding site [ion binding]; other site 585057001087 putative homodimer interface [polypeptide binding]; other site 585057001088 putative homotetramer interface [polypeptide binding]; other site 585057001089 putative homodimer-homodimer interface [polypeptide binding]; other site 585057001090 putative allosteric switch controlling residues; other site 585057001091 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 585057001092 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 585057001093 substrate binding site [chemical binding]; other site 585057001094 catalytic Zn binding site [ion binding]; other site 585057001095 NAD binding site [chemical binding]; other site 585057001096 structural Zn binding site [ion binding]; other site 585057001097 dimer interface [polypeptide binding]; other site 585057001098 Predicted esterase [General function prediction only]; Region: COG0627 585057001099 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 585057001100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 585057001101 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 585057001102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057001103 putative substrate translocation pore; other site 585057001104 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 585057001105 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 585057001106 active site 585057001107 catalytic residues [active] 585057001108 metal binding site [ion binding]; metal-binding site 585057001109 DmpG-like communication domain; Region: DmpG_comm; pfam07836 585057001110 acetaldehyde dehydrogenase; Validated; Region: PRK08300 585057001111 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 585057001112 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 585057001113 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 585057001114 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 585057001115 Putative lysophospholipase; Region: Hydrolase_4; cl19140 585057001116 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 585057001117 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 585057001118 putative active site [active] 585057001119 Fe(II) binding site [ion binding]; other site 585057001120 putative dimer interface [polypeptide binding]; other site 585057001121 putative tetramer interface [polypeptide binding]; other site 585057001122 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 585057001123 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057001124 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 585057001125 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 585057001126 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057001127 lac repressor; Reviewed; Region: lacI; PRK09526 585057001128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057001129 DNA binding site [nucleotide binding] 585057001130 domain linker motif; other site 585057001131 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 585057001132 ligand binding site [chemical binding]; other site 585057001133 dimerization interface (open form) [polypeptide binding]; other site 585057001134 dimerization interface (closed form) [polypeptide binding]; other site 585057001135 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 585057001136 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 585057001137 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 585057001138 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 585057001139 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 585057001140 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 585057001141 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057001142 putative substrate translocation pore; other site 585057001143 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 585057001144 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 585057001145 active site 585057001146 substrate binding site [chemical binding]; other site 585057001147 trimer interface [polypeptide binding]; other site 585057001148 CoA binding site [chemical binding]; other site 585057001149 putative cyanate transporter; Provisional; Region: cynX; PRK09705 585057001150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057001151 putative substrate translocation pore; other site 585057001152 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 585057001153 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 585057001154 oligomer interface [polypeptide binding]; other site 585057001155 active site 585057001156 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 585057001157 active site clefts [active] 585057001158 zinc binding site [ion binding]; other site 585057001159 dimer interface [polypeptide binding]; other site 585057001160 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 585057001161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001162 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 585057001163 dimerization interface [polypeptide binding]; other site 585057001164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001165 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001166 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001167 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057001168 HTH-like domain; Region: HTH_21; pfam13276 585057001169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057001170 Integrase core domain; Region: rve; pfam00665 585057001171 Integrase core domain; Region: rve_2; pfam13333 585057001172 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 585057001173 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 585057001174 active site 585057001175 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 585057001176 Na binding site [ion binding]; other site 585057001177 putative substrate binding site [chemical binding]; other site 585057001178 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 585057001179 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 585057001180 acyl-activating enzyme (AAE) consensus motif; other site 585057001181 AMP binding site [chemical binding]; other site 585057001182 active site 585057001183 CoA binding site [chemical binding]; other site 585057001184 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 585057001185 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 585057001186 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 585057001187 dimer interface [polypeptide binding]; other site 585057001188 active site 585057001189 citrylCoA binding site [chemical binding]; other site 585057001190 oxalacetate/citrate binding site [chemical binding]; other site 585057001191 coenzyme A binding site [chemical binding]; other site 585057001192 catalytic triad [active] 585057001193 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 585057001194 tetramer interface [polypeptide binding]; other site 585057001195 active site 585057001196 Mg2+/Mn2+ binding site [ion binding]; other site 585057001197 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 585057001198 Propionate catabolism activator; Region: PrpR_N; pfam06506 585057001199 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 585057001200 Walker A motif; other site 585057001201 ATP binding site [chemical binding]; other site 585057001202 Walker B motif; other site 585057001203 arginine finger; other site 585057001204 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057001205 hypothetical protein; Provisional; Region: PRK09929 585057001206 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 585057001207 fragment of putative oxidoreductase, Zn-dependent and NAD(P)-binding (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057001208 fragment of putative oxidoreductase, Zn-dependent and NAD(P)-binding (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057001209 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 585057001210 TM-ABC transporter signature motif; other site 585057001211 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 585057001212 TM-ABC transporter signature motif; other site 585057001213 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 585057001214 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057001215 Walker A/P-loop; other site 585057001216 ATP binding site [chemical binding]; other site 585057001217 Q-loop/lid; other site 585057001218 ABC transporter signature motif; other site 585057001219 Walker B; other site 585057001220 D-loop; other site 585057001221 H-loop/switch region; other site 585057001222 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057001223 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 585057001224 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 585057001225 ligand binding site [chemical binding]; other site 585057001226 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 585057001227 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 585057001228 cytosine deaminase; Provisional; Region: PRK05985 585057001229 active site 585057001230 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 585057001231 putative substrate binding site [chemical binding]; other site 585057001232 nucleotide binding site [chemical binding]; other site 585057001233 nucleotide binding site [chemical binding]; other site 585057001234 homodimer interface [polypeptide binding]; other site 585057001235 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 585057001236 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 585057001237 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 585057001238 CoA binding domain; Region: CoA_binding; pfam02629 585057001239 CoA-ligase; Region: Ligase_CoA; pfam00549 585057001240 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 585057001241 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 585057001242 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 585057001243 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 585057001244 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 585057001245 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 585057001246 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 585057001247 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001248 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 585057001249 dimerization interface [polypeptide binding]; other site 585057001250 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 585057001251 DNA binding residues [nucleotide binding] 585057001252 dimerization interface [polypeptide binding]; other site 585057001253 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 585057001254 choline transport protein BetT; Provisional; Region: PRK09928 585057001255 transcriptional regulator BetI; Validated; Region: PRK00767 585057001256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057001257 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 585057001258 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 585057001259 tetrameric interface [polypeptide binding]; other site 585057001260 NAD binding site [chemical binding]; other site 585057001261 catalytic residues [active] 585057001262 choline dehydrogenase; Validated; Region: PRK02106 585057001263 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057001264 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 585057001265 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 585057001266 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 585057001267 Uncharacterized conserved protein [Function unknown]; Region: COG1556 585057001268 iron-sulfur cluster-binding protein; Region: TIGR00273 585057001269 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 585057001270 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057001271 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 585057001272 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 585057001273 Cysteine-rich domain; Region: CCG; pfam02754 585057001274 Cysteine-rich domain; Region: CCG; pfam02754 585057001275 Cupin; Region: Cupin_6; pfam12852 585057001276 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 585057001277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057001278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057001279 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 585057001280 Squalene epoxidase; Region: SE; cl17314 585057001281 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057001282 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 585057001283 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057001284 Predicted membrane protein [Function unknown]; Region: COG3059 585057001285 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 585057001286 active site 585057001287 catalytic tetrad [active] 585057001288 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 585057001289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057001290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057001291 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 585057001292 attaching and effacing protein, pathogenesis factor (part 2);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2172966, 16549668; Product type pf : putative factor 585057001293 attaching and effacing protein, pathogenesis factor (part 1);Evidence 2b : Function of strongly homologous gene; PubMedId : 2172966, 16549668; Product type pf : putative factor 585057001294 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 585057001295 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057001296 active site 585057001297 catalytic tetrad [active] 585057001298 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 585057001299 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057001300 active site 585057001301 catalytic tetrad [active] 585057001302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057001303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001304 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 585057001305 putative effector binding pocket; other site 585057001306 putative dimerization interface [polypeptide binding]; other site 585057001307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057001308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001309 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 585057001310 putative effector binding pocket; other site 585057001311 putative dimerization interface [polypeptide binding]; other site 585057001312 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 585057001313 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 585057001314 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 585057001315 putative active site [active] 585057001316 putative FMN binding site [chemical binding]; other site 585057001317 putative substrate binding site [chemical binding]; other site 585057001318 putative catalytic residue [active] 585057001319 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 585057001320 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 585057001321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057001322 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057001323 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057001324 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057001325 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 585057001326 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 585057001327 DNA binding residues [nucleotide binding] 585057001328 fragment of E. coli common pilus (ECP) (partial);Evidence 7 : Gene remnant; Product type s : structure 585057001329 putative fimbrial protein TcfA; Provisional; Region: PRK15308 585057001330 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 585057001331 Outer membrane usher protein; Region: Usher; pfam00577 585057001332 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 585057001333 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 585057001334 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 585057001335 putative catalytic cysteine [active] 585057001336 gamma-glutamyl kinase; Provisional; Region: PRK05429 585057001337 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 585057001338 nucleotide binding site [chemical binding]; other site 585057001339 homotetrameric interface [polypeptide binding]; other site 585057001340 putative phosphate binding site [ion binding]; other site 585057001341 putative allosteric binding site; other site 585057001342 PUA domain; Region: PUA; pfam01472 585057001343 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 585057001344 trimer interface [polypeptide binding]; other site 585057001345 eyelet of channel; other site 585057001346 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 585057001347 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 585057001348 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 585057001349 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057001350 active site 585057001351 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 585057001352 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 585057001353 metal binding site [ion binding]; metal-binding site 585057001354 dimer interface [polypeptide binding]; other site 585057001355 RF-1 domain; Region: RF-1; cl17422 585057001356 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 585057001357 hypothetical protein; Reviewed; Region: PRK09588 585057001358 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 585057001359 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 585057001360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057001361 Coenzyme A binding pocket [chemical binding]; other site 585057001362 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 585057001363 active site 585057001364 DNA polymerase IV; Validated; Region: PRK02406 585057001365 DNA binding site [nucleotide binding] 585057001366 hypothetical protein; Validated; Region: PRK06778 585057001367 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057001368 ligand binding site [chemical binding]; other site 585057001369 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 585057001370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 585057001371 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057001372 NlpC/P60 family; Region: NLPC_P60; pfam00877 585057001373 RelB antitoxin; Region: RelB; pfam04221 585057001374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 585057001375 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001376 Transposase; Region: HTH_Tnp_1; pfam01527 585057001377 putative transposase OrfB; Reviewed; Region: PHA02517 585057001378 HTH-like domain; Region: HTH_21; pfam13276 585057001379 Integrase core domain; Region: rve; pfam00665 585057001380 Integrase core domain; Region: rve_3; pfam13683 585057001381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 585057001382 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057001383 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 585057001384 putative active site [active] 585057001385 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 585057001386 putative dimer interface [polypeptide binding]; other site 585057001387 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 585057001388 dimer interface [polypeptide binding]; other site 585057001389 active site 585057001390 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 585057001391 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 585057001392 active site 585057001393 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 585057001394 C-lysozyme inhibitor; Provisional; Region: PRK09993 585057001395 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 585057001396 putative active site [active] 585057001397 catalytic triad [active] 585057001398 dimer interface [polypeptide binding]; other site 585057001399 multimer interface [polypeptide binding]; other site 585057001400 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 585057001401 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 585057001402 active site 585057001403 catalytic site [active] 585057001404 substrate binding site [chemical binding]; other site 585057001405 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 585057001406 RNA/DNA hybrid binding site [nucleotide binding]; other site 585057001407 active site 585057001408 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 585057001409 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 585057001410 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 585057001411 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 585057001412 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057001413 catalytic residue [active] 585057001414 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057001415 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057001416 Methyltransferase domain; Region: Methyltransf_31; pfam13847 585057001417 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 585057001418 S-adenosylmethionine binding site [chemical binding]; other site 585057001419 Flavivirus glycoprotein, central and dimerization domains; Region: Flavi_glycoprot; pfam00869 585057001420 hypothetical protein; Provisional; Region: PRK05421 585057001421 putative catalytic site [active] 585057001422 putative metal binding site [ion binding]; other site 585057001423 putative phosphate binding site [ion binding]; other site 585057001424 putative catalytic site [active] 585057001425 putative phosphate binding site [ion binding]; other site 585057001426 putative metal binding site [ion binding]; other site 585057001427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057001428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001429 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 585057001430 putative effector binding pocket; other site 585057001431 dimerization interface [polypeptide binding]; other site 585057001432 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 585057001433 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057001434 active site 585057001435 catalytic tetrad [active] 585057001436 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 585057001437 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 585057001438 active site 585057001439 motif I; other site 585057001440 motif II; other site 585057001441 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 585057001442 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 585057001443 Walker A/P-loop; other site 585057001444 ATP binding site [chemical binding]; other site 585057001445 Q-loop/lid; other site 585057001446 ABC transporter signature motif; other site 585057001447 Walker B; other site 585057001448 D-loop; other site 585057001449 H-loop/switch region; other site 585057001450 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 585057001451 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 585057001452 dimer interface [polypeptide binding]; other site 585057001453 conserved gate region; other site 585057001454 putative PBP binding loops; other site 585057001455 ABC-ATPase subunit interface; other site 585057001456 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 585057001457 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 585057001458 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 585057001459 homodimer interaction site [polypeptide binding]; other site 585057001460 cofactor binding site; other site 585057001461 prolyl-tRNA synthetase; Provisional; Region: PRK09194 585057001462 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 585057001463 dimer interface [polypeptide binding]; other site 585057001464 motif 1; other site 585057001465 active site 585057001466 motif 2; other site 585057001467 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 585057001468 putative deacylase active site [active] 585057001469 motif 3; other site 585057001470 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 585057001471 anticodon binding site; other site 585057001472 Integrase core domain; Region: rve; pfam00665 585057001473 Integrase core domain; Region: rve_3; pfam13683 585057001474 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057001475 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 585057001476 putative active site [active] 585057001477 putative NTP binding site [chemical binding]; other site 585057001478 putative nucleic acid binding site [nucleotide binding]; other site 585057001479 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057001480 fragment of transposase ORF B, IS3 family (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057001481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001482 Transposase; Region: HTH_Tnp_1; cl17663 585057001483 hypothetical protein; Provisional; Region: PRK11479 585057001484 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057001485 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 585057001486 Uncharacterized lipoprotein NlpE involved in copper resistance [Cell envelope biogenesis, outer membrane / Inorganic ion transport and metabolism]; Region: CutF; COG3015 585057001487 hypothetical protein; Provisional; Region: PRK09256 585057001488 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 585057001489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 585057001490 hypothetical protein; Provisional; Region: PRK04964 585057001491 Rho-binding antiterminator; Provisional; Region: PRK11625 585057001492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001493 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001494 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001495 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057001496 HTH-like domain; Region: HTH_21; pfam13276 585057001497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057001498 Integrase core domain; Region: rve; pfam00665 585057001499 Integrase core domain; Region: rve_2; pfam13333 585057001500 TIGR00245 family protein; Region: TIGR00245 585057001501 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 585057001502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057001503 Walker A/P-loop; other site 585057001504 ATP binding site [chemical binding]; other site 585057001505 Q-loop/lid; other site 585057001506 ABC transporter signature motif; other site 585057001507 Walker B; other site 585057001508 D-loop; other site 585057001509 H-loop/switch region; other site 585057001510 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 585057001511 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 585057001512 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 585057001513 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 585057001514 YadA-like C-terminal region; Region: YadA_anchor; pfam03895 585057001515 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057001516 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057001517 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057001518 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 585057001519 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 585057001520 DNA binding residues [nucleotide binding] 585057001521 dimer interface [polypeptide binding]; other site 585057001522 copper binding site [ion binding]; other site 585057001523 fragment of RtxD/HlyD/CyaD protein of type I secretion system (partial);Evidence 7 : Gene remnant; Product type t : transporter 585057001524 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057001525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057001526 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057001527 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057001528 allantoinase; Provisional; Region: PRK08044 585057001529 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 585057001530 active site 585057001531 putative uracil/xanthine transporter; Provisional; Region: PRK11412 585057001532 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 585057001533 glycerate kinase II; Provisional; Region: PRK09932 585057001534 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 585057001535 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 585057001536 Cupin domain; Region: Cupin_2; cl17218 585057001537 allantoate amidohydrolase; Region: AllC; TIGR03176 585057001538 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 585057001539 active site 585057001540 metal binding site [ion binding]; metal-binding site 585057001541 dimer interface [polypeptide binding]; other site 585057001542 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 585057001543 membrane protein FdrA; Validated; Region: PRK06091 585057001544 CoA binding domain; Region: CoA_binding; pfam02629 585057001545 CoA-ligase; Region: Ligase_CoA; pfam00549 585057001546 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 585057001547 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 585057001548 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 585057001549 putative substrate binding site [chemical binding]; other site 585057001550 nucleotide binding site [chemical binding]; other site 585057001551 nucleotide binding site [chemical binding]; other site 585057001552 homodimer interface [polypeptide binding]; other site 585057001553 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 585057001554 ATP-grasp domain; Region: ATP-grasp; pfam02222 585057001555 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 585057001556 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 585057001557 putative active site [active] 585057001558 putative metal binding site [ion binding]; other site 585057001559 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 585057001560 substrate binding site [chemical binding]; other site 585057001561 Transposase; Region: HTH_Tnp_1; cl17663 585057001562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001563 putative transposase OrfB; Reviewed; Region: PHA02517 585057001564 HTH-like domain; Region: HTH_21; pfam13276 585057001565 Integrase core domain; Region: rve; pfam00665 585057001566 Integrase core domain; Region: rve_3; pfam13683 585057001567 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 585057001568 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 585057001569 active site 585057001570 HIGH motif; other site 585057001571 KMSKS motif; other site 585057001572 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 585057001573 tRNA binding surface [nucleotide binding]; other site 585057001574 anticodon binding site; other site 585057001575 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 585057001576 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 585057001577 RNA binding surface [nucleotide binding]; other site 585057001578 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 585057001579 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 585057001580 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 585057001581 homodimer interface [polypeptide binding]; other site 585057001582 NADP binding site [chemical binding]; other site 585057001583 substrate binding site [chemical binding]; other site 585057001584 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 585057001585 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 585057001586 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057001587 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057001588 outer membrane usher protein FimD; Provisional; Region: PRK15198 585057001589 PapC N-terminal domain; Region: PapC_N; pfam13954 585057001590 Outer membrane usher protein; Region: Usher; pfam00577 585057001591 PapC C-terminal domain; Region: PapC_C; pfam13953 585057001592 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 585057001593 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 585057001594 transcriptional regulator FimZ; Provisional; Region: PRK09935 585057001595 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 585057001596 active site 585057001597 phosphorylation site [posttranslational modification] 585057001598 intermolecular recognition site; other site 585057001599 dimerization interface [polypeptide binding]; other site 585057001600 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 585057001601 DNA binding residues [nucleotide binding] 585057001602 dimerization interface [polypeptide binding]; other site 585057001603 fragment of putative integrase; DLP12 prophage (partial);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057001604 putative transposase OrfB; Reviewed; Region: PHA02517 585057001605 HTH-like domain; Region: HTH_21; pfam13276 585057001606 Integrase core domain; Region: rve; pfam00665 585057001607 Integrase core domain; Region: rve_3; pfam13683 585057001608 Transposase; Region: HTH_Tnp_1; cl17663 585057001609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001610 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 585057001611 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 585057001612 active site 585057001613 DNA binding site [nucleotide binding] 585057001614 Int/Topo IB signature motif; other site 585057001615 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 585057001616 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 585057001617 D5 N terminal like; Region: D5_N; smart00885 585057001618 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 585057001619 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 585057001620 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 585057001621 ssDNA binding site [nucleotide binding]; other site 585057001622 dimer interface [polypeptide binding]; other site 585057001623 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057001624 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 585057001625 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 585057001626 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 585057001627 TIR domain; Region: TIR_2; pfam13676 585057001628 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 585057001629 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 585057001630 DNA packaging protein FI; Region: Packaging_FI; pfam14000 585057001631 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 585057001632 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 585057001633 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 585057001634 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 585057001635 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 585057001636 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 585057001637 Minor tail protein T; Region: Phage_tail_T; pfam06223 585057001638 Phage-related minor tail protein [Function unknown]; Region: COG5281 585057001639 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 585057001640 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 585057001641 Phage-related protein [Function unknown]; Region: COG4718 585057001642 Phage-related protein [Function unknown]; Region: gp18; COG4672 585057001643 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 585057001644 MPN+ (JAMM) motif; other site 585057001645 Zinc-binding site [ion binding]; other site 585057001646 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057001647 NlpC/P60 family; Region: NLPC_P60; cl17555 585057001648 Phage-related protein, tail component [Function unknown]; Region: COG4723 585057001649 Phage-related protein, tail component [Function unknown]; Region: COG4733 585057001650 Putative phage tail protein; Region: Phage-tail_3; pfam13550 585057001651 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 585057001652 Interdomain contacts; other site 585057001653 Cytokine receptor motif; other site 585057001654 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 585057001655 Fibronectin type III protein; Region: DUF3672; pfam12421 585057001656 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 585057001657 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 585057001658 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 585057001659 Methyltransferase domain; Region: Methyltransf_31; pfam13847 585057001660 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 585057001661 S-adenosylmethionine binding site [chemical binding]; other site 585057001662 conserved hypothetical protein from phage origin (partial);Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin 585057001663 Putative lysophospholipase; Region: Hydrolase_4; cl19140 585057001664 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 585057001665 TAP-like protein; Region: Abhydrolase_4; pfam08386 585057001666 outer membrane protease; Reviewed; Region: PRK10993 585057001667 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 585057001668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057001669 hypothetical protein; Provisional; Region: PRK09936 585057001670 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 585057001671 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 585057001672 TPR motif; other site 585057001673 binding surface 585057001674 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 585057001675 fragment of bacteriophage N4 receptor, inner membrane subunit (part 2);Evidence 7 : Gene remnant; Product type m : membrane component 585057001676 fragment of bacteriophage N4 receptor, inner membrane subunit (part 1);Evidence 7 : Gene remnant; Product type m : membrane component 585057001677 sensor kinase CusS; Provisional; Region: PRK09835 585057001678 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 585057001679 dimerization interface [polypeptide binding]; other site 585057001680 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 585057001681 dimer interface [polypeptide binding]; other site 585057001682 phosphorylation site [posttranslational modification] 585057001683 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 585057001684 ATP binding site [chemical binding]; other site 585057001685 Mg2+ binding site [ion binding]; other site 585057001686 G-X-G motif; other site 585057001687 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 585057001688 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 585057001689 active site 585057001690 phosphorylation site [posttranslational modification] 585057001691 intermolecular recognition site; other site 585057001692 dimerization interface [polypeptide binding]; other site 585057001693 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 585057001694 DNA binding site [nucleotide binding] 585057001695 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 585057001696 Outer membrane efflux protein; Region: OEP; pfam02321 585057001697 Outer membrane efflux protein; Region: OEP; pfam02321 585057001698 periplasmic copper-binding protein; Provisional; Region: PRK09838 585057001699 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 585057001700 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057001701 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 585057001702 phenylalanine transporter; Provisional; Region: PRK10249 585057001703 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057001704 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 585057001705 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057001706 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 585057001707 dimer interface [polypeptide binding]; other site 585057001708 FMN binding site [chemical binding]; other site 585057001709 hypothetical protein; Provisional; Region: PRK10250 585057001710 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 585057001711 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 585057001712 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 585057001713 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 585057001714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057001715 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001716 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057001717 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057001718 HTH-like domain; Region: HTH_21; pfam13276 585057001719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057001720 Integrase core domain; Region: rve; pfam00665 585057001721 Integrase core domain; Region: rve_2; pfam13333 585057001722 outer membrane receptor FepA; Provisional; Region: PRK13524 585057001723 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 585057001724 N-terminal plug; other site 585057001725 ligand-binding site [chemical binding]; other site 585057001726 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 585057001727 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 585057001728 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 585057001729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 585057001730 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 585057001731 Condensation domain; Region: Condensation; pfam00668 585057001732 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 585057001733 acyl-activating enzyme (AAE) consensus motif; other site 585057001734 AMP binding site [chemical binding]; other site 585057001735 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057001736 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 585057001737 LPS O-antigen length regulator; Provisional; Region: PRK10381 585057001738 Chain length determinant protein; Region: Wzz; pfam02706 585057001739 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 585057001740 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 585057001741 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057001742 Walker A/P-loop; other site 585057001743 ATP binding site [chemical binding]; other site 585057001744 Q-loop/lid; other site 585057001745 ABC transporter signature motif; other site 585057001746 Walker B; other site 585057001747 D-loop; other site 585057001748 H-loop/switch region; other site 585057001749 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 585057001750 ABC-ATPase subunit interface; other site 585057001751 dimer interface [polypeptide binding]; other site 585057001752 putative PBP binding regions; other site 585057001753 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 585057001754 ABC-ATPase subunit interface; other site 585057001755 dimer interface [polypeptide binding]; other site 585057001756 putative PBP binding regions; other site 585057001757 enterobactin exporter EntS; Provisional; Region: PRK10489 585057001758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057001759 putative substrate translocation pore; other site 585057001760 ABC-type Fe2+-enterobactin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG4592 585057001761 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 585057001762 siderophore binding site; other site 585057001763 isochorismate synthase EntC; Provisional; Region: PRK15016 585057001764 chorismate binding enzyme; Region: Chorismate_bind; cl10555 585057001765 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 585057001766 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 585057001767 acyl-activating enzyme (AAE) consensus motif; other site 585057001768 active site 585057001769 AMP binding site [chemical binding]; other site 585057001770 substrate binding site [chemical binding]; other site 585057001771 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 585057001772 hydrophobic substrate binding pocket; other site 585057001773 active site 585057001774 conserved cis-peptide bond; other site 585057001775 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 585057001776 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 585057001777 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 585057001778 putative NAD(P) binding site [chemical binding]; other site 585057001779 active site 585057001780 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 585057001781 CoenzymeA binding site [chemical binding]; other site 585057001782 subunit interaction site [polypeptide binding]; other site 585057001783 PHB binding site; other site 585057001784 carbon starvation protein A; Provisional; Region: PRK15015 585057001785 Carbon starvation protein CstA; Region: CstA; pfam02554 585057001786 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 585057001787 Uncharacterized small protein [Function unknown]; Region: COG2879 585057001788 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 585057001789 putative active site [active] 585057001790 metal binding site [ion binding]; metal-binding site 585057001791 methionine aminotransferase; Validated; Region: PRK09082 585057001792 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 585057001793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057001794 homodimer interface [polypeptide binding]; other site 585057001795 catalytic residue [active] 585057001796 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 585057001797 ParB-like nuclease domain; Region: ParBc; pfam02195 585057001798 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 585057001799 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 585057001800 Active Sites [active] 585057001801 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 585057001802 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 585057001803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001804 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 585057001805 dimerization interface [polypeptide binding]; other site 585057001806 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 585057001807 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 585057001808 dimerization domain [polypeptide binding]; other site 585057001809 dimer interface [polypeptide binding]; other site 585057001810 catalytic residues [active] 585057001811 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 585057001812 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 585057001813 dimer interface [polypeptide binding]; other site 585057001814 decamer (pentamer of dimers) interface [polypeptide binding]; other site 585057001815 catalytic triad [active] 585057001816 peroxidatic and resolving cysteines [active] 585057001817 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 585057001818 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 585057001819 catalytic residue [active] 585057001820 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 585057001821 catalytic residues [active] 585057001822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057001823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057001824 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 585057001825 Ligand Binding Site [chemical binding]; other site 585057001826 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 585057001827 Rnk N-terminus; Region: Rnk_N; pfam14760 585057001828 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 585057001829 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 585057001830 B1 nucleotide binding pocket [chemical binding]; other site 585057001831 B2 nucleotide binding pocket [chemical binding]; other site 585057001832 CAS motifs; other site 585057001833 active site 585057001834 anion transporter; Region: dass; TIGR00785 585057001835 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 585057001836 transmembrane helices; other site 585057001837 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 585057001838 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 585057001839 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 585057001840 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 585057001841 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 585057001842 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 585057001843 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 585057001844 putative active site [active] 585057001845 (T/H)XGH motif; other site 585057001846 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 585057001847 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 585057001848 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 585057001849 putative active site [active] 585057001850 heme pocket [chemical binding]; other site 585057001851 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 585057001852 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 585057001853 ATP binding site [chemical binding]; other site 585057001854 Mg2+ binding site [ion binding]; other site 585057001855 G-X-G motif; other site 585057001856 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 585057001857 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 585057001858 active site 585057001859 phosphorylation site [posttranslational modification] 585057001860 intermolecular recognition site; other site 585057001861 dimerization interface [polypeptide binding]; other site 585057001862 Transcriptional regulator; Region: CitT; pfam12431 585057001863 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 585057001864 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 585057001865 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 585057001866 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 585057001867 DNA-binding site [nucleotide binding]; DNA binding site 585057001868 RNA-binding motif; other site 585057001869 chromosome condensation membrane protein; Provisional; Region: PRK14196 585057001870 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 585057001871 active site 585057001872 catalytic triad [active] 585057001873 dimer interface [polypeptide binding]; other site 585057001874 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 585057001875 lipoyl synthase; Provisional; Region: PRK05481 585057001876 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 585057001877 FeS/SAM binding site; other site 585057001878 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 585057001879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057001880 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 585057001881 dimerization interface [polypeptide binding]; other site 585057001882 lipoate-protein ligase B; Provisional; Region: PRK14342 585057001883 hypothetical protein; Provisional; Region: PRK04998 585057001884 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 585057001885 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 585057001886 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 585057001887 rare lipoprotein A; Provisional; Region: PRK10672 585057001888 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 585057001889 Sporulation related domain; Region: SPOR; pfam05036 585057001890 cell wall shape-determining protein; Provisional; Region: PRK10794 585057001891 penicillin-binding protein 2; Provisional; Region: PRK10795 585057001892 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 585057001893 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 585057001894 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 585057001895 ribosome-associated protein; Provisional; Region: PRK11538 585057001896 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 585057001897 catalytic core [active] 585057001898 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 585057001899 active site 585057001900 (T/H)XGH motif; other site 585057001901 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 585057001902 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 585057001903 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 585057001904 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 585057001905 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 585057001906 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 585057001907 active site 585057001908 HIGH motif; other site 585057001909 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 585057001910 KMSKS motif; other site 585057001911 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 585057001912 tRNA binding surface [nucleotide binding]; other site 585057001913 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 585057001914 hypothetical protein; Provisional; Region: PRK11032 585057001915 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 585057001916 active site 585057001917 tetramer interface [polypeptide binding]; other site 585057001918 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 585057001919 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585057001920 Walker A/P-loop; other site 585057001921 ATP binding site [chemical binding]; other site 585057001922 Q-loop/lid; other site 585057001923 ABC transporter signature motif; other site 585057001924 Walker B; other site 585057001925 D-loop; other site 585057001926 H-loop/switch region; other site 585057001927 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 585057001928 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 585057001929 dimer interface [polypeptide binding]; other site 585057001930 conserved gate region; other site 585057001931 putative PBP binding loops; other site 585057001932 ABC-ATPase subunit interface; other site 585057001933 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 585057001934 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 585057001935 dimer interface [polypeptide binding]; other site 585057001936 conserved gate region; other site 585057001937 putative PBP binding loops; other site 585057001938 ABC-ATPase subunit interface; other site 585057001939 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 585057001940 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 585057001941 substrate binding pocket [chemical binding]; other site 585057001942 membrane-bound complex binding site; other site 585057001943 hinge residues; other site 585057001944 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 585057001945 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 585057001946 putative active site [active] 585057001947 catalytic triad [active] 585057001948 putative dimer interface [polypeptide binding]; other site 585057001949 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 585057001950 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 585057001951 Transporter associated domain; Region: CorC_HlyC; smart01091 585057001952 metal-binding heat shock protein; Provisional; Region: PRK00016 585057001953 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 585057001954 PhoH-like protein; Region: PhoH; pfam02562 585057001955 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 585057001956 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 585057001957 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 585057001958 FeS/SAM binding site; other site 585057001959 TRAM domain; Region: TRAM; pfam01938 585057001960 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 585057001961 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 585057001962 asparagine synthetase B; Provisional; Region: asnB; PRK09431 585057001963 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 585057001964 active site 585057001965 dimer interface [polypeptide binding]; other site 585057001966 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 585057001967 Ligand Binding Site [chemical binding]; other site 585057001968 Molecular Tunnel; other site 585057001969 UMP phosphatase; Provisional; Region: PRK10444 585057001970 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 585057001971 active site 585057001972 motif I; other site 585057001973 motif II; other site 585057001974 MarR family; Region: MarR_2; cl17246 585057001975 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057001976 ROK family; Region: ROK; pfam00480 585057001977 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 585057001978 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 585057001979 active site 585057001980 dimer interface [polypeptide binding]; other site 585057001981 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 585057001982 active site 585057001983 trimer interface [polypeptide binding]; other site 585057001984 allosteric site; other site 585057001985 active site lid [active] 585057001986 hexamer (dimer of trimers) interface [polypeptide binding]; other site 585057001987 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 585057001988 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 585057001989 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 585057001990 active site turn [active] 585057001991 phosphorylation site [posttranslational modification] 585057001992 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 585057001993 HPr interaction site; other site 585057001994 glycerol kinase (GK) interaction site [polypeptide binding]; other site 585057001995 active site 585057001996 phosphorylation site [posttranslational modification] 585057001997 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 585057001998 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 585057001999 active site 585057002000 HIGH motif; other site 585057002001 KMSKS motif; other site 585057002002 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 585057002003 outer membrane porin, OprD family; Region: OprD; pfam03573 585057002004 YbfN-like lipoprotein; Region: YbfN; pfam13982 585057002005 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 585057002006 metal binding site 2 [ion binding]; metal-binding site 585057002007 putative DNA binding helix; other site 585057002008 metal binding site 1 [ion binding]; metal-binding site 585057002009 dimer interface [polypeptide binding]; other site 585057002010 structural Zn2+ binding site [ion binding]; other site 585057002011 flavodoxin FldA; Validated; Region: PRK09267 585057002012 LexA regulated protein; Provisional; Region: PRK11675 585057002013 acyl-CoA esterase; Provisional; Region: PRK10673 585057002014 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 585057002015 replication initiation regulator SeqA; Provisional; Region: PRK11187 585057002016 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 585057002017 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 585057002018 active site 585057002019 substrate binding site [chemical binding]; other site 585057002020 metal binding site [ion binding]; metal-binding site 585057002021 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 585057002022 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 585057002023 putrescine transporter; Provisional; Region: potE; PRK10655 585057002024 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 585057002025 ornithine decarboxylase; Provisional; Region: PRK13578 585057002026 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 585057002027 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 585057002028 homodimer interface [polypeptide binding]; other site 585057002029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057002030 catalytic residue [active] 585057002031 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 585057002032 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 585057002033 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 585057002034 active site 585057002035 phosphorylation site [posttranslational modification] 585057002036 intermolecular recognition site; other site 585057002037 dimerization interface [polypeptide binding]; other site 585057002038 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 585057002039 DNA binding site [nucleotide binding] 585057002040 sensor protein KdpD; Provisional; Region: PRK10490 585057002041 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 585057002042 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 585057002043 Ligand Binding Site [chemical binding]; other site 585057002044 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 585057002045 GAF domain; Region: GAF_3; pfam13492 585057002046 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 585057002047 dimer interface [polypeptide binding]; other site 585057002048 phosphorylation site [posttranslational modification] 585057002049 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 585057002050 ATP binding site [chemical binding]; other site 585057002051 Mg2+ binding site [ion binding]; other site 585057002052 G-X-G motif; other site 585057002053 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 585057002054 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 585057002055 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585057002056 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585057002057 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 585057002058 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 585057002059 hypothetical protein; Provisional; Region: PRK10167 585057002060 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 585057002061 DNA photolyase; Region: DNA_photolyase; pfam00875 585057002062 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 585057002063 dipeptide/tripeptide permease D; Provisional; Region: PRK15462 585057002064 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 585057002065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057002066 putative substrate translocation pore; other site 585057002067 metal-binding protein; Provisional; Region: PRK10799 585057002068 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 585057002069 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 585057002070 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 585057002071 putative active site [active] 585057002072 endonuclease VIII; Provisional; Region: PRK10445 585057002073 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 585057002074 DNA binding site [nucleotide binding] 585057002075 catalytic residue [active] 585057002076 putative catalytic residues [active] 585057002077 H2TH interface [polypeptide binding]; other site 585057002078 intercalation triad [nucleotide binding]; other site 585057002079 substrate specificity determining residue; other site 585057002080 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 585057002081 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 585057002082 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 585057002083 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 585057002084 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 585057002085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057002086 DNA-binding site [nucleotide binding]; DNA binding site 585057002087 Transcriptional regulators [Transcription]; Region: FadR; COG2186 585057002088 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057002089 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 585057002090 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 585057002091 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057002092 putative NAD(P) binding site [chemical binding]; other site 585057002093 catalytic Zn binding site [ion binding]; other site 585057002094 structural Zn binding site [ion binding]; other site 585057002095 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 585057002096 classical (c) SDRs; Region: SDR_c; cd05233 585057002097 NAD(P) binding site [chemical binding]; other site 585057002098 active site 585057002099 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 585057002100 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 585057002101 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 585057002102 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 585057002103 DctM-like transporters; Region: DctM; pfam06808 585057002104 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 585057002105 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 585057002106 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 585057002107 dimer interface [polypeptide binding]; other site 585057002108 active site 585057002109 citrylCoA binding site [chemical binding]; other site 585057002110 NADH binding [chemical binding]; other site 585057002111 cationic pore residues; other site 585057002112 oxalacetate/citrate binding site [chemical binding]; other site 585057002113 coenzyme A binding site [chemical binding]; other site 585057002114 catalytic triad [active] 585057002115 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 585057002116 Iron-sulfur protein interface; other site 585057002117 proximal quinone binding site [chemical binding]; other site 585057002118 SdhD (CybS) interface [polypeptide binding]; other site 585057002119 proximal heme binding site [chemical binding]; other site 585057002120 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 585057002121 SdhC subunit interface [polypeptide binding]; other site 585057002122 proximal heme binding site [chemical binding]; other site 585057002123 cardiolipin binding site; other site 585057002124 Iron-sulfur protein interface; other site 585057002125 proximal quinone binding site [chemical binding]; other site 585057002126 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 585057002127 L-aspartate oxidase; Provisional; Region: PRK06175 585057002128 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 585057002129 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 585057002130 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 585057002131 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 585057002132 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 585057002133 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 585057002134 TPP-binding site [chemical binding]; other site 585057002135 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 585057002136 dimer interface [polypeptide binding]; other site 585057002137 PYR/PP interface [polypeptide binding]; other site 585057002138 TPP binding site [chemical binding]; other site 585057002139 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 585057002140 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 585057002141 E3 interaction surface; other site 585057002142 lipoyl attachment site [posttranslational modification]; other site 585057002143 e3 binding domain; Region: E3_binding; pfam02817 585057002144 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 585057002145 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 585057002146 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 585057002147 CoA-ligase; Region: Ligase_CoA; pfam00549 585057002148 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 585057002149 CoA binding domain; Region: CoA_binding; pfam02629 585057002150 CoA-ligase; Region: Ligase_CoA; pfam00549 585057002151 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 585057002152 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 585057002153 urocanate hydratase; Provisional; Region: PRK05414 585057002154 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 585057002155 Na binding site [ion binding]; other site 585057002156 HutD; Region: HutD; pfam05962 585057002157 imidazolonepropionase; Validated; Region: PRK09356 585057002158 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 585057002159 active site 585057002160 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 585057002161 putative active site [active] 585057002162 putative metal binding site [ion binding]; other site 585057002163 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 585057002164 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 585057002165 active sites [active] 585057002166 tetramer interface [polypeptide binding]; other site 585057002167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057002168 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 585057002169 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 585057002170 dimerization interface [polypeptide binding]; other site 585057002171 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 585057002172 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 585057002173 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 585057002174 homodimer interface [polypeptide binding]; other site 585057002175 Walker A motif; other site 585057002176 ATP binding site [chemical binding]; other site 585057002177 hydroxycobalamin binding site [chemical binding]; other site 585057002178 Walker B motif; other site 585057002179 putative fumarate hydratase; Provisional; Region: PRK15392 585057002180 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 585057002181 Fumarase C-terminus; Region: Fumerase_C; pfam05683 585057002182 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 585057002183 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 585057002184 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 585057002185 Methylaspartate ammonia-lyase [Amino acid transport and metabolism]; Region: Mal; COG3799 585057002186 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 585057002187 dimer interface [polypeptide binding]; other site 585057002188 active site 585057002189 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 585057002190 substrate binding site [chemical binding]; other site 585057002191 B12 cofactor binding site [chemical binding]; other site 585057002192 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 585057002193 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 585057002194 conserved hypothetical protein; Region: glmL_fam; TIGR01319 585057002195 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 585057002196 B12 binding site [chemical binding]; other site 585057002197 heterodimer interface [polypeptide binding]; other site 585057002198 cobalt ligand [ion binding]; other site 585057002199 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 585057002200 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 585057002201 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 585057002202 hypothetical protein; Provisional; Region: PRK10588 585057002203 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 585057002204 active site 585057002205 colicin uptake protein TolQ; Provisional; Region: PRK10801 585057002206 colicin uptake protein TolR; Provisional; Region: PRK11024 585057002207 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 585057002208 Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9); Region: ClassIIa_HDAC_Gln-rich-N; cl13614 585057002209 TolA C-terminal; Region: TolA; pfam06519 585057002210 translocation protein TolB; Provisional; Region: tolB; PRK03629 585057002211 TolB amino-terminal domain; Region: TolB_N; pfam04052 585057002212 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 585057002213 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 585057002214 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 585057002215 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 585057002216 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057002217 ligand binding site [chemical binding]; other site 585057002218 tol-pal system protein YbgF; Provisional; Region: PRK10803 585057002219 Tetratricopeptide repeat; Region: TPR_6; pfam13174 585057002220 Tetratricopeptide repeat; Region: TPR_6; pfam13174 585057002221 quinolinate synthetase; Provisional; Region: PRK09375 585057002222 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 585057002223 zinc transporter ZitB; Provisional; Region: PRK03557 585057002224 YbgS-like protein; Region: YbgS; pfam13985 585057002225 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 585057002226 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 585057002227 catalytic core [active] 585057002228 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 585057002229 active site 585057002230 catalytic residues [active] 585057002231 galactokinase; Provisional; Region: PRK05101 585057002232 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 585057002233 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 585057002234 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 585057002235 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 585057002236 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 585057002237 dimer interface [polypeptide binding]; other site 585057002238 active site 585057002239 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 585057002240 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 585057002241 NAD binding site [chemical binding]; other site 585057002242 homodimer interface [polypeptide binding]; other site 585057002243 active site 585057002244 substrate binding site [chemical binding]; other site 585057002245 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 585057002246 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 585057002247 Walker A/P-loop; other site 585057002248 ATP binding site [chemical binding]; other site 585057002249 Q-loop/lid; other site 585057002250 ABC transporter signature motif; other site 585057002251 Walker B; other site 585057002252 D-loop; other site 585057002253 H-loop/switch region; other site 585057002254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057002255 Walker A/P-loop; other site 585057002256 ATP binding site [chemical binding]; other site 585057002257 Q-loop/lid; other site 585057002258 ABC transporter signature motif; other site 585057002259 Walker B; other site 585057002260 D-loop; other site 585057002261 H-loop/switch region; other site 585057002262 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 585057002263 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 585057002264 molybdenum-pterin binding domain; Region: Mop; TIGR00638 585057002265 TOBE domain; Region: TOBE; pfam03459 585057002266 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 585057002267 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 585057002268 substrate binding pocket [chemical binding]; other site 585057002269 membrane-bound complex binding site; other site 585057002270 hinge residues; other site 585057002271 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 585057002272 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 585057002273 dimer interface [polypeptide binding]; other site 585057002274 conserved gate region; other site 585057002275 putative PBP binding loops; other site 585057002276 ABC-ATPase subunit interface; other site 585057002277 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 585057002278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057002279 Walker A/P-loop; other site 585057002280 ATP binding site [chemical binding]; other site 585057002281 Q-loop/lid; other site 585057002282 ABC transporter signature motif; other site 585057002283 Walker B; other site 585057002284 D-loop; other site 585057002285 H-loop/switch region; other site 585057002286 molybdenum-pterin binding domain; Region: Mop; TIGR00638 585057002287 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 585057002288 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 585057002289 active site 585057002290 motif I; other site 585057002291 motif II; other site 585057002292 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057002293 6-phosphogluconolactonase; Provisional; Region: PRK11028 585057002294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057002295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057002296 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 585057002297 putative dimerization interface [polypeptide binding]; other site 585057002298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057002299 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057002300 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057002301 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057002302 putative hydratase; Provisional; Region: PRK11413 585057002303 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 585057002304 substrate binding site [chemical binding]; other site 585057002305 ligand binding site [chemical binding]; other site 585057002306 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 585057002307 substrate binding site [chemical binding]; other site 585057002308 acyl-CoA thioesterase; Provisional; Region: PRK10531 585057002309 Pectinesterase; Region: Pectinesterase; cl01911 585057002310 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 585057002311 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 585057002312 dimer interface [polypeptide binding]; other site 585057002313 active site 585057002314 Int/Topo IB signature motif; other site 585057002315 Integrase core domain; Region: rve; pfam00665 585057002316 Integrase core domain; Region: rve_3; pfam13683 585057002317 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057002318 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 585057002319 putative active site [active] 585057002320 putative NTP binding site [chemical binding]; other site 585057002321 putative nucleic acid binding site [nucleotide binding]; other site 585057002322 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057002323 HTH-like domain; Region: HTH_21; pfam13276 585057002324 Transposase; Region: HTH_Tnp_1; cl17663 585057002325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057002326 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 585057002327 Capsule O-acetyl transferase (fragment);Evidence 2b : Function of strongly homologous gene; PubMedId : 15809431; Product type e : enzyme 585057002328 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 585057002329 substrate binding site [chemical binding]; other site 585057002330 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057002331 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 585057002332 inhibitor-cofactor binding pocket; inhibition site 585057002333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057002334 catalytic residue [active] 585057002335 biotin synthase; Provisional; Region: PRK15108 585057002336 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 585057002337 FeS/SAM binding site; other site 585057002338 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 585057002339 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 585057002340 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 585057002341 substrate-cofactor binding pocket; other site 585057002342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057002343 catalytic residue [active] 585057002344 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 585057002345 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 585057002346 S-adenosylmethionine binding site [chemical binding]; other site 585057002347 AAA domain; Region: AAA_26; pfam13500 585057002348 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 585057002349 active site 585057002350 ADP binding site [chemical binding]; other site 585057002351 excinuclease ABC subunit B; Provisional; Region: PRK05298 585057002352 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 585057002353 ATP binding site [chemical binding]; other site 585057002354 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 585057002355 nucleotide binding region [chemical binding]; other site 585057002356 ATP-binding site [chemical binding]; other site 585057002357 Ultra-violet resistance protein B; Region: UvrB; pfam12344 585057002358 UvrB/uvrC motif; Region: UVR; pfam02151 585057002359 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 585057002360 phosphate binding site [ion binding]; other site 585057002361 putative substrate binding pocket [chemical binding]; other site 585057002362 dimer interface [polypeptide binding]; other site 585057002363 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 585057002364 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 585057002365 FeS/SAM binding site; other site 585057002366 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 585057002367 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 585057002368 MPT binding site; other site 585057002369 trimer interface [polypeptide binding]; other site 585057002370 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 585057002371 trimer interface [polypeptide binding]; other site 585057002372 dimer interface [polypeptide binding]; other site 585057002373 putative active site [active] 585057002374 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 585057002375 MoaE interaction surface [polypeptide binding]; other site 585057002376 MoeB interaction surface [polypeptide binding]; other site 585057002377 thiocarboxylated glycine; other site 585057002378 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 585057002379 MoaE homodimer interface [polypeptide binding]; other site 585057002380 MoaD interaction [polypeptide binding]; other site 585057002381 active site residues [active] 585057002382 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 585057002383 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 585057002384 Predicted integral membrane protein [Function unknown]; Region: COG0392 585057002385 cardiolipin synthase 2; Provisional; Region: PRK11263 585057002386 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 585057002387 putative active site [active] 585057002388 catalytic site [active] 585057002389 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 585057002390 putative active site [active] 585057002391 catalytic site [active] 585057002392 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 585057002393 putative catalytic site [active] 585057002394 putative metal binding site [ion binding]; other site 585057002395 putative phosphate binding site [ion binding]; other site 585057002396 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 585057002397 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 585057002398 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 585057002399 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 585057002400 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 585057002401 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 585057002402 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 585057002403 Walker A/P-loop; other site 585057002404 ATP binding site [chemical binding]; other site 585057002405 Q-loop/lid; other site 585057002406 ABC transporter signature motif; other site 585057002407 Walker B; other site 585057002408 D-loop; other site 585057002409 H-loop/switch region; other site 585057002410 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 585057002411 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 585057002412 Walker A/P-loop; other site 585057002413 ATP binding site [chemical binding]; other site 585057002414 Q-loop/lid; other site 585057002415 ABC transporter signature motif; other site 585057002416 Walker B; other site 585057002417 D-loop; other site 585057002418 H-loop/switch region; other site 585057002419 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 585057002420 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057002421 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057002422 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 585057002423 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057002424 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 585057002425 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 585057002426 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 585057002427 ATP binding site [chemical binding]; other site 585057002428 Mg++ binding site [ion binding]; other site 585057002429 motif III; other site 585057002430 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 585057002431 nucleotide binding region [chemical binding]; other site 585057002432 ATP-binding site [chemical binding]; other site 585057002433 SopA-like central domain; Region: SopA; pfam13981 585057002434 SopA-like catalytic domain; Region: SopA_C; pfam13979 585057002435 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 585057002436 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 585057002437 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 585057002438 glycosyl transferase family protein; Provisional; Region: PRK08136 585057002439 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 585057002440 putative dehydrogenase; Provisional; Region: PRK10098 585057002441 hypothetical protein; Provisional; Region: PRK10259 585057002442 hypothetical protein; Provisional; Region: PRK11019 585057002443 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 585057002444 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 585057002445 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 585057002446 N-terminal plug; other site 585057002447 ligand-binding site [chemical binding]; other site 585057002448 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 585057002449 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 585057002450 putative mechanosensitive channel protein; Provisional; Region: PRK11465 585057002451 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057002452 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 585057002453 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585057002454 Walker A/P-loop; other site 585057002455 ATP binding site [chemical binding]; other site 585057002456 Q-loop/lid; other site 585057002457 ABC transporter signature motif; other site 585057002458 Walker B; other site 585057002459 D-loop; other site 585057002460 H-loop/switch region; other site 585057002461 glutamine ABC transporter permease protein; Reviewed; Region: glnP; PRK09494 585057002462 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 585057002463 dimer interface [polypeptide binding]; other site 585057002464 conserved gate region; other site 585057002465 putative PBP binding loops; other site 585057002466 ABC-ATPase subunit interface; other site 585057002467 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 585057002468 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 585057002469 substrate binding pocket [chemical binding]; other site 585057002470 membrane-bound complex binding site; other site 585057002471 hinge residues; other site 585057002472 Ferritin-like domain; Region: Ferritin; pfam00210 585057002473 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 585057002474 dimerization interface [polypeptide binding]; other site 585057002475 DPS ferroxidase diiron center [ion binding]; other site 585057002476 ion pore; other site 585057002477 threonine and homoserine efflux system; Provisional; Region: PRK10532 585057002478 EamA-like transporter family; Region: EamA; pfam00892 585057002479 outer membrane protein X; Provisional; Region: ompX; PRK09408 585057002480 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 585057002481 Sulfatase; Region: Sulfatase; pfam00884 585057002482 manganese transport regulator MntR; Provisional; Region: PRK11050 585057002483 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 585057002484 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 585057002485 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 585057002486 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 585057002487 transmembrane helices; other site 585057002488 L,D-transpeptidase; Provisional; Region: PRK10260 585057002489 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057002490 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 585057002491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057002492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057002493 Walker A/P-loop; other site 585057002494 ATP binding site [chemical binding]; other site 585057002495 ABC transporter signature motif; other site 585057002496 Walker B; other site 585057002497 ABC transporter; Region: ABC_tran_2; pfam12848 585057002498 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057002499 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 585057002500 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 585057002501 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 585057002502 active site 585057002503 motif I; other site 585057002504 motif II; other site 585057002505 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057002506 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 585057002507 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 585057002508 dimer interface [polypeptide binding]; other site 585057002509 active site 585057002510 glycine loop; other site 585057002511 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 585057002512 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 585057002513 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 585057002514 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 585057002515 active site 585057002516 intersubunit interactions; other site 585057002517 catalytic residue [active] 585057002518 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 585057002519 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 585057002520 ATP binding site [chemical binding]; other site 585057002521 substrate interface [chemical binding]; other site 585057002522 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 585057002523 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 585057002524 dimer interface [polypeptide binding]; other site 585057002525 putative functional site; other site 585057002526 putative MPT binding site; other site 585057002527 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 585057002528 catalytic nucleophile [active] 585057002529 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 585057002530 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057002531 Walker A/P-loop; other site 585057002532 ATP binding site [chemical binding]; other site 585057002533 Q-loop/lid; other site 585057002534 ABC transporter signature motif; other site 585057002535 Walker B; other site 585057002536 D-loop; other site 585057002537 H-loop/switch region; other site 585057002538 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057002539 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057002540 Walker A/P-loop; other site 585057002541 ATP binding site [chemical binding]; other site 585057002542 Q-loop/lid; other site 585057002543 ABC transporter signature motif; other site 585057002544 Walker B; other site 585057002545 D-loop; other site 585057002546 H-loop/switch region; other site 585057002547 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 585057002548 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 585057002549 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 585057002550 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 585057002551 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 585057002552 dimer interface [polypeptide binding]; other site 585057002553 conserved gate region; other site 585057002554 putative PBP binding loops; other site 585057002555 ABC-ATPase subunit interface; other site 585057002556 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 585057002557 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585057002558 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 585057002559 dimer interface [polypeptide binding]; other site 585057002560 conserved gate region; other site 585057002561 putative PBP binding loops; other site 585057002562 ABC-ATPase subunit interface; other site 585057002563 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 585057002564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057002565 metal binding site [ion binding]; metal-binding site 585057002566 active site 585057002567 I-site; other site 585057002568 Predicted transcriptional regulator [Transcription]; Region: COG2944 585057002569 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 585057002570 non-specific DNA binding site [nucleotide binding]; other site 585057002571 salt bridge; other site 585057002572 sequence-specific DNA binding site [nucleotide binding]; other site 585057002573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4737 585057002574 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 585057002575 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 585057002576 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 585057002577 FeS/SAM binding site; other site 585057002578 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 585057002579 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 585057002580 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 585057002581 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 585057002582 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 585057002583 putative C-terminal domain interface [polypeptide binding]; other site 585057002584 putative GSH binding site (G-site) [chemical binding]; other site 585057002585 putative dimer interface [polypeptide binding]; other site 585057002586 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 585057002587 N-terminal domain interface [polypeptide binding]; other site 585057002588 dimer interface [polypeptide binding]; other site 585057002589 substrate binding pocket (H-site) [chemical binding]; other site 585057002590 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 585057002591 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 585057002592 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 585057002593 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 585057002594 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057002595 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057002596 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585057002597 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 585057002598 active site 585057002599 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 585057002600 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057002601 putative substrate translocation pore; other site 585057002602 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 585057002603 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 585057002604 active site 585057002605 motif I; other site 585057002606 motif II; other site 585057002607 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 585057002608 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057002609 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 585057002610 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057002611 putative substrate translocation pore; other site 585057002612 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 585057002613 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057002614 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 585057002615 putative transporter; Provisional; Region: PRK04972 585057002616 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 585057002617 TrkA-C domain; Region: TrkA_C; pfam02080 585057002618 TrkA-C domain; Region: TrkA_C; pfam02080 585057002619 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 585057002620 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 585057002621 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 585057002622 GSH binding site [chemical binding]; other site 585057002623 catalytic residues [active] 585057002624 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 585057002625 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 585057002626 dimer interface [polypeptide binding]; other site 585057002627 FMN binding site [chemical binding]; other site 585057002628 NADPH bind site [chemical binding]; other site 585057002629 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 585057002630 RimK-like ATP-grasp domain; Region: RimK; pfam08443 585057002631 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 585057002632 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 585057002633 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 585057002634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057002635 Walker A/P-loop; other site 585057002636 ATP binding site [chemical binding]; other site 585057002637 Q-loop/lid; other site 585057002638 ABC transporter signature motif; other site 585057002639 Walker B; other site 585057002640 D-loop; other site 585057002641 H-loop/switch region; other site 585057002642 TOBE domain; Region: TOBE_2; pfam08402 585057002643 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 585057002644 dimer interface [polypeptide binding]; other site 585057002645 conserved gate region; other site 585057002646 putative PBP binding loops; other site 585057002647 ABC-ATPase subunit interface; other site 585057002648 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 585057002649 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 585057002650 dimer interface [polypeptide binding]; other site 585057002651 conserved gate region; other site 585057002652 putative PBP binding loops; other site 585057002653 ABC-ATPase subunit interface; other site 585057002654 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 585057002655 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 585057002656 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 585057002657 S-adenosylmethionine binding site [chemical binding]; other site 585057002658 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 585057002659 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 585057002660 substrate binding pocket [chemical binding]; other site 585057002661 membrane-bound complex binding site; other site 585057002662 hinge residues; other site 585057002663 arginine transporter permease subunit ArtM; Provisional; Region: artM; PRK11122 585057002664 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 585057002665 dimer interface [polypeptide binding]; other site 585057002666 conserved gate region; other site 585057002667 putative PBP binding loops; other site 585057002668 ABC-ATPase subunit interface; other site 585057002669 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 585057002670 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 585057002671 dimer interface [polypeptide binding]; other site 585057002672 conserved gate region; other site 585057002673 putative PBP binding loops; other site 585057002674 ABC-ATPase subunit interface; other site 585057002675 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 585057002676 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 585057002677 substrate binding pocket [chemical binding]; other site 585057002678 membrane-bound complex binding site; other site 585057002679 hinge residues; other site 585057002680 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 585057002681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057002682 Walker A/P-loop; other site 585057002683 ATP binding site [chemical binding]; other site 585057002684 Q-loop/lid; other site 585057002685 ABC transporter signature motif; other site 585057002686 Walker B; other site 585057002687 D-loop; other site 585057002688 H-loop/switch region; other site 585057002689 fragment of putative exported protein (partial);Evidence 7 : Gene remnant; Product type lp : lipoprotein 585057002690 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 585057002691 hypothetical protein; Provisional; Region: PRK02877 585057002692 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 585057002693 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 585057002694 amidase catalytic site [active] 585057002695 Zn binding residues [ion binding]; other site 585057002696 substrate binding site [chemical binding]; other site 585057002697 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 585057002698 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 585057002699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057002700 NAD(P) binding site [chemical binding]; other site 585057002701 active site 585057002702 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 585057002703 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 585057002704 putative NAD(P) binding site [chemical binding]; other site 585057002705 putative active site [active] 585057002706 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 585057002707 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 585057002708 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 585057002709 tetramer interface [polypeptide binding]; other site 585057002710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057002711 catalytic residue [active] 585057002712 pyruvate dehydrogenase; Provisional; Region: PRK09124 585057002713 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 585057002714 PYR/PP interface [polypeptide binding]; other site 585057002715 dimer interface [polypeptide binding]; other site 585057002716 tetramer interface [polypeptide binding]; other site 585057002717 TPP binding site [chemical binding]; other site 585057002718 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 585057002719 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 585057002720 TPP-binding site [chemical binding]; other site 585057002721 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 585057002722 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 585057002723 FAD binding pocket [chemical binding]; other site 585057002724 FAD binding motif [chemical binding]; other site 585057002725 phosphate binding motif [ion binding]; other site 585057002726 beta-alpha-beta structure motif; other site 585057002727 NAD binding pocket [chemical binding]; other site 585057002728 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 585057002729 catalytic loop [active] 585057002730 iron binding site [ion binding]; other site 585057002731 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 585057002732 cubane metal cluster [ion binding]; other site 585057002733 hybrid metal cluster; other site 585057002734 Predicted membrane protein [Function unknown]; Region: COG2431 585057002735 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057002736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 585057002737 Transposase; Region: DEDD_Tnp_IS110; pfam01548 585057002738 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 585057002739 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 585057002740 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 585057002741 Outer membrane efflux protein; Region: OEP; pfam02321 585057002742 oxidoreductase; Provisional; Region: PRK12743 585057002743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057002744 NAD(P) binding site [chemical binding]; other site 585057002745 active site 585057002746 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585057002747 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 585057002748 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 585057002749 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 585057002750 D-lactate dehydrogenase; Provisional; Region: PRK11183 585057002751 FAD binding domain; Region: FAD_binding_4; cl19922 585057002752 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 585057002753 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 585057002754 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 585057002755 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 585057002756 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 585057002757 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 585057002758 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 585057002759 dimer interface [polypeptide binding]; other site 585057002760 conserved gate region; other site 585057002761 putative PBP binding loops; other site 585057002762 ABC-ATPase subunit interface; other site 585057002763 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 585057002764 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 585057002765 Walker A/P-loop; other site 585057002766 ATP binding site [chemical binding]; other site 585057002767 Q-loop/lid; other site 585057002768 ABC transporter signature motif; other site 585057002769 Walker B; other site 585057002770 D-loop; other site 585057002771 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 585057002772 H-loop/switch region; other site 585057002773 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 585057002774 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 585057002775 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 585057002776 dimer interface [polypeptide binding]; other site 585057002777 conserved gate region; other site 585057002778 putative PBP binding loops; other site 585057002779 ABC-ATPase subunit interface; other site 585057002780 hypothetical protein; Provisional; Region: PRK13681 585057002781 transcriptional regulator MirA; Provisional; Region: PRK15043 585057002782 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 585057002783 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 585057002784 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 585057002785 DNA binding site [nucleotide binding] 585057002786 active site 585057002787 Int/Topo IB signature motif; other site 585057002788 Integrase core domain; Region: rve; pfam00665 585057002789 Integrase core domain; Region: rve_3; pfam13683 585057002790 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057002791 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 585057002792 putative active site [active] 585057002793 putative NTP binding site [chemical binding]; other site 585057002794 putative nucleic acid binding site [nucleotide binding]; other site 585057002795 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057002796 HTH-like domain; Region: HTH_21; pfam13276 585057002797 Transposase; Region: HTH_Tnp_1; cl17663 585057002798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057002799 Phage-related minor tail protein [Function unknown]; Region: COG5281 585057002800 tape measure domain; Region: tape_meas_nterm; TIGR02675 585057002801 Flagellar FliJ protein; Region: FliJ; pfam02050 585057002802 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 585057002803 Phage-related protein [Function unknown]; Region: COG4718 585057002804 Phage-related protein [Function unknown]; Region: gp18; COG4672 585057002805 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 585057002806 MPN+ (JAMM) motif; other site 585057002807 Zinc-binding site [ion binding]; other site 585057002808 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057002809 NlpC/P60 family; Region: NLPC_P60; cl17555 585057002810 Phage-related protein, tail component [Function unknown]; Region: COG4723 585057002811 Phage-related protein, tail component [Function unknown]; Region: COG4733 585057002812 Putative phage tail protein; Region: Phage-tail_3; pfam13550 585057002813 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 585057002814 Interdomain contacts; other site 585057002815 Cytokine receptor motif; other site 585057002816 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 585057002817 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 585057002818 Fibronectin type III protein; Region: DUF3672; pfam12421 585057002819 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 585057002820 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 585057002821 DinI-like family; Region: DinI; pfam06183 585057002822 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 585057002823 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 585057002824 GAF domain; Region: GAF; pfam01590 585057002825 Histidine kinase; Region: His_kinase; pfam06580 585057002826 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 585057002827 ATP binding site [chemical binding]; other site 585057002828 Mg2+ binding site [ion binding]; other site 585057002829 G-X-G motif; other site 585057002830 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 585057002831 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 585057002832 active site 585057002833 phosphorylation site [posttranslational modification] 585057002834 intermolecular recognition site; other site 585057002835 dimerization interface [polypeptide binding]; other site 585057002836 LytTr DNA-binding domain; Region: LytTR; pfam04397 585057002837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 585057002838 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 585057002839 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 585057002840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 585057002841 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 585057002842 metal ion-dependent adhesion site (MIDAS); other site 585057002843 MoxR-like ATPases [General function prediction only]; Region: COG0714 585057002844 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 585057002845 Walker A motif; other site 585057002846 ATP binding site [chemical binding]; other site 585057002847 Walker B motif; other site 585057002848 arginine finger; other site 585057002849 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 585057002850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057002851 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057002852 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057002853 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057002854 fragment of Molybdate metabolism regulator (part 2);Evidence 7 : Gene remnant; Product type r : regulator 585057002855 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 585057002856 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 585057002857 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 585057002858 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 585057002859 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 585057002860 active site 585057002861 HIGH motif; other site 585057002862 KMSKS motif; other site 585057002863 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 585057002864 tRNA binding surface [nucleotide binding]; other site 585057002865 anticodon binding site; other site 585057002866 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 585057002867 dimer interface [polypeptide binding]; other site 585057002868 putative tRNA-binding site [nucleotide binding]; other site 585057002869 antiporter inner membrane protein; Provisional; Region: PRK11670 585057002870 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 585057002871 Walker A motif; other site 585057002872 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 585057002873 Fimbrial protein; Region: Fimbrial; cl01416 585057002874 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 585057002875 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057002876 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057002877 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 585057002878 PapC N-terminal domain; Region: PapC_N; pfam13954 585057002879 Outer membrane usher protein; Region: Usher; pfam00577 585057002880 PapC C-terminal domain; Region: PapC_C; pfam13953 585057002881 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 585057002882 Predicted integral membrane protein [Function unknown]; Region: COG5455 585057002883 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 585057002884 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 585057002885 putative metal binding site [ion binding]; other site 585057002886 putative homodimer interface [polypeptide binding]; other site 585057002887 putative homotetramer interface [polypeptide binding]; other site 585057002888 putative homodimer-homodimer interface [polypeptide binding]; other site 585057002889 putative allosteric switch controlling residues; other site 585057002890 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 585057002891 substrate binding site [chemical binding]; other site 585057002892 multimerization interface [polypeptide binding]; other site 585057002893 ATP binding site [chemical binding]; other site 585057002894 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 585057002895 dimer interface [polypeptide binding]; other site 585057002896 substrate binding site [chemical binding]; other site 585057002897 ATP binding site [chemical binding]; other site 585057002898 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 585057002899 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 585057002900 active site 585057002901 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 585057002902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057002903 DNA-binding site [nucleotide binding]; DNA binding site 585057002904 UTRA domain; Region: UTRA; pfam07702 585057002905 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 585057002906 substrate binding site [chemical binding]; other site 585057002907 ATP binding site [chemical binding]; other site 585057002908 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 585057002909 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 585057002910 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057002911 putative substrate translocation pore; other site 585057002912 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 585057002913 putative active site; other site 585057002914 catalytic residue [active] 585057002915 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 585057002916 intersubunit interface [polypeptide binding]; other site 585057002917 active site 585057002918 zinc binding site [ion binding]; other site 585057002919 Na+ binding site [ion binding]; other site 585057002920 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 585057002921 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 585057002922 active site 585057002923 phosphorylation site [posttranslational modification] 585057002924 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 585057002925 active site 585057002926 P-loop; other site 585057002927 phosphorylation site [posttranslational modification] 585057002928 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 585057002929 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 585057002930 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 585057002931 putative NAD(P) binding site [chemical binding]; other site 585057002932 catalytic Zn binding site [ion binding]; other site 585057002933 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057002934 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 585057002935 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057002936 lipid kinase; Reviewed; Region: PRK13054 585057002937 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 585057002938 putative protease; Provisional; Region: PRK15452 585057002939 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 585057002940 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 585057002941 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 585057002942 Uncharacterized conserved protein [Function unknown]; Region: COG3422 585057002943 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 585057002944 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 585057002945 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 585057002946 active site 585057002947 phosphorylation site [posttranslational modification] 585057002948 intermolecular recognition site; other site 585057002949 dimerization interface [polypeptide binding]; other site 585057002950 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 585057002951 DNA binding site [nucleotide binding] 585057002952 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 585057002953 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 585057002954 dimerization interface [polypeptide binding]; other site 585057002955 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 585057002956 dimer interface [polypeptide binding]; other site 585057002957 phosphorylation site [posttranslational modification] 585057002958 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 585057002959 ATP binding site [chemical binding]; other site 585057002960 Mg2+ binding site [ion binding]; other site 585057002961 G-X-G motif; other site 585057002962 putative transporter; Provisional; Region: PRK10504 585057002963 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057002964 putative substrate translocation pore; other site 585057002965 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 585057002966 MMPL family; Region: MMPL; cl14618 585057002967 MMPL family; Region: MMPL; cl14618 585057002968 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 585057002969 MMPL family; Region: MMPL; cl14618 585057002970 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 585057002971 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057002972 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057002973 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 585057002974 metal ion-dependent adhesion site (MIDAS); other site 585057002975 Protein phosphatase 2C; Region: PP2C_2; pfam13672 585057002976 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 585057002977 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 585057002978 substrate binding site [chemical binding]; other site 585057002979 activation loop (A-loop); other site 585057002980 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 585057002981 putative chaperone; Provisional; Region: PRK11678 585057002982 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 585057002983 nucleotide binding site [chemical binding]; other site 585057002984 putative NEF/HSP70 interaction site [polypeptide binding]; other site 585057002985 SBD interface [polypeptide binding]; other site 585057002986 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 585057002987 AlkA N-terminal domain; Region: AlkA_N; smart01009 585057002988 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585057002989 minor groove reading motif; other site 585057002990 helix-hairpin-helix signature motif; other site 585057002991 substrate binding pocket [chemical binding]; other site 585057002992 active site 585057002993 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 585057002994 putative diguanylate cyclase; Provisional; Region: PRK09776 585057002995 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 585057002996 putative active site [active] 585057002997 heme pocket [chemical binding]; other site 585057002998 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 585057002999 putative active site [active] 585057003000 heme pocket [chemical binding]; other site 585057003001 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 585057003002 putative active site [active] 585057003003 heme pocket [chemical binding]; other site 585057003004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057003005 metal binding site [ion binding]; metal-binding site 585057003006 active site 585057003007 I-site; other site 585057003008 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 585057003009 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 585057003010 ATP-binding site [chemical binding]; other site 585057003011 Sugar specificity; other site 585057003012 Pyrimidine base specificity; other site 585057003013 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 585057003014 trimer interface [polypeptide binding]; other site 585057003015 active site 585057003016 putative assembly protein; Provisional; Region: PRK10833 585057003017 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585057003018 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 585057003019 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 585057003020 non-specific DNA binding site [nucleotide binding]; other site 585057003021 salt bridge; other site 585057003022 sequence-specific DNA binding site [nucleotide binding]; other site 585057003023 Phage-related protein [Function unknown]; Region: COG4679 585057003024 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 585057003025 FOG: CBS domain [General function prediction only]; Region: COG0517 585057003026 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 585057003027 Transporter associated domain; Region: CorC_HlyC; smart01091 585057003028 polysaccharide export protein Wza; Provisional; Region: PRK15078 585057003029 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 585057003030 SLBB domain; Region: SLBB; pfam10531 585057003031 SLBB domain; Region: SLBB; pfam10531 585057003032 Low molecular weight phosphatase family; Region: LMWPc; cd00115 585057003033 active site 585057003034 tyrosine kinase; Provisional; Region: PRK11519 585057003035 Chain length determinant protein; Region: Wzz; pfam02706 585057003036 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 585057003037 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 585057003038 putative glycosyl transferase; Provisional; Region: PRK10018 585057003039 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 585057003040 active site 585057003041 putative acyl transferase; Provisional; Region: PRK10191 585057003042 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 585057003043 trimer interface [polypeptide binding]; other site 585057003044 active site 585057003045 substrate binding site [chemical binding]; other site 585057003046 CoA binding site [chemical binding]; other site 585057003047 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 585057003048 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 585057003049 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 585057003050 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 585057003051 putative glycosyl transferase; Provisional; Region: PRK10063 585057003052 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 585057003053 metal-binding site 585057003054 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 585057003055 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 585057003056 putative trimer interface [polypeptide binding]; other site 585057003057 putative active site [active] 585057003058 putative substrate binding site [chemical binding]; other site 585057003059 putative CoA binding site [chemical binding]; other site 585057003060 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 585057003061 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 585057003062 NADP-binding site; other site 585057003063 homotetramer interface [polypeptide binding]; other site 585057003064 substrate binding site [chemical binding]; other site 585057003065 homodimer interface [polypeptide binding]; other site 585057003066 active site 585057003067 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 585057003068 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 585057003069 NADP binding site [chemical binding]; other site 585057003070 active site 585057003071 putative substrate binding site [chemical binding]; other site 585057003072 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 585057003073 active site 585057003074 GDP-Mannose binding site [chemical binding]; other site 585057003075 dimer interface [polypeptide binding]; other site 585057003076 modified nudix motif 585057003077 metal binding site [ion binding]; metal-binding site 585057003078 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 585057003079 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 585057003080 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 585057003081 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 585057003082 Substrate binding site; other site 585057003083 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 585057003084 phosphomannomutase CpsG; Provisional; Region: PRK15414 585057003085 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 585057003086 active site 585057003087 substrate binding site [chemical binding]; other site 585057003088 metal binding site [ion binding]; metal-binding site 585057003089 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 585057003090 CoA-binding domain; Region: CoA_binding_3; pfam13727 585057003091 Bacterial sugar transferase; Region: Bac_transf; pfam02397 585057003092 colanic acid exporter; Provisional; Region: PRK10459 585057003093 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 585057003094 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 585057003095 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 585057003096 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 585057003097 putative ADP-binding pocket [chemical binding]; other site 585057003098 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 585057003099 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 585057003100 active site 585057003101 tetramer interface; other site 585057003102 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 585057003103 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 585057003104 NAD binding site [chemical binding]; other site 585057003105 substrate binding site [chemical binding]; other site 585057003106 homodimer interface [polypeptide binding]; other site 585057003107 active site 585057003108 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 585057003109 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 585057003110 NADP binding site [chemical binding]; other site 585057003111 active site 585057003112 putative substrate binding site [chemical binding]; other site 585057003113 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 585057003114 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 585057003115 substrate binding site; other site 585057003116 tetramer interface; other site 585057003117 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 585057003118 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 585057003119 colanic acid exporter; Provisional; Region: PRK10459 585057003120 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 585057003121 inhibitor-cofactor binding pocket; inhibition site 585057003122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057003123 catalytic residue [active] 585057003124 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 585057003125 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 585057003126 trimer interface [polypeptide binding]; other site 585057003127 active site 585057003128 substrate binding site [chemical binding]; other site 585057003129 CoA binding site [chemical binding]; other site 585057003130 ornithine decarboxylase SpeF; Region: ODC_inducible; TIGR04301 585057003131 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 585057003132 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 585057003133 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 585057003134 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 585057003135 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 585057003136 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 585057003137 Substrate binding site; other site 585057003138 Cupin domain; Region: Cupin_2; cl17218 585057003139 phosphomannomutase CpsG; Provisional; Region: PRK15414 585057003140 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 585057003141 active site 585057003142 substrate binding site [chemical binding]; other site 585057003143 metal binding site [ion binding]; metal-binding site 585057003144 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 585057003145 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 585057003146 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 585057003147 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 585057003148 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 585057003149 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 585057003150 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 585057003151 chain length determinant protein WzzB; Provisional; Region: PRK15471 585057003152 Chain length determinant protein; Region: Wzz; pfam02706 585057003153 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 585057003154 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 585057003155 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 585057003156 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 585057003157 metal binding site [ion binding]; metal-binding site 585057003158 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 585057003159 substrate binding site [chemical binding]; other site 585057003160 glutamase interaction surface [polypeptide binding]; other site 585057003161 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 585057003162 catalytic residues [active] 585057003163 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 585057003164 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 585057003165 putative active site [active] 585057003166 oxyanion strand; other site 585057003167 catalytic triad [active] 585057003168 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 585057003169 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 585057003170 active site 585057003171 motif I; other site 585057003172 motif II; other site 585057003173 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 585057003174 putative active site pocket [active] 585057003175 4-fold oligomerization interface [polypeptide binding]; other site 585057003176 metal binding residues [ion binding]; metal-binding site 585057003177 3-fold/trimer interface [polypeptide binding]; other site 585057003178 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 585057003179 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 585057003180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057003181 homodimer interface [polypeptide binding]; other site 585057003182 catalytic residue [active] 585057003183 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 585057003184 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 585057003185 NAD binding site [chemical binding]; other site 585057003186 dimerization interface [polypeptide binding]; other site 585057003187 product binding site; other site 585057003188 substrate binding site [chemical binding]; other site 585057003189 zinc binding site [ion binding]; other site 585057003190 catalytic residues [active] 585057003191 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 585057003192 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 585057003193 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 585057003194 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 585057003195 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 585057003196 putative NAD(P) binding site [chemical binding]; other site 585057003197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057003198 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 585057003199 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 585057003200 dimerization interface [polypeptide binding]; other site 585057003201 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 585057003202 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057003203 Predicted transporter component [General function prediction only]; Region: COG2391 585057003204 Sulphur transport; Region: Sulf_transp; cl19477 585057003205 Sulphur transport; Region: Sulf_transp; cl19477 585057003206 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 585057003207 CPxP motif; other site 585057003208 exonuclease I; Provisional; Region: sbcB; PRK11779 585057003209 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 585057003210 active site 585057003211 catalytic site [active] 585057003212 substrate binding site [chemical binding]; other site 585057003213 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 585057003214 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 585057003215 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 585057003216 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 585057003217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057003218 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 585057003219 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 585057003220 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057003221 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 585057003222 DNA gyrase inhibitor; Provisional; Region: PRK10016 585057003223 Predicted membrane protein [Function unknown]; Region: COG1289 585057003224 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 585057003225 hypothetical protein; Provisional; Region: PRK05423 585057003226 fragment of toxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057003227 fragment of antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057003228 Protein of unknown function (DUF987); Region: DUF987; pfam06174 585057003229 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 585057003230 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 585057003231 MPN+ (JAMM) motif; other site 585057003232 Zinc-binding site [ion binding]; other site 585057003233 Antirestriction protein; Region: Antirestrict; pfam03230 585057003234 Domain of unknown function (DUF932); Region: DUF932; pfam06067 585057003235 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 585057003236 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 585057003237 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 585057003238 active site 585057003239 nucleophile elbow; other site 585057003240 YjcZ-like protein; Region: YjcZ; pfam13990 585057003241 YjcZ-like protein; Region: YjcZ; pfam13990 585057003242 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585057003243 G1 box; other site 585057003244 GTP/Mg2+ binding site [chemical binding]; other site 585057003245 G2 box; other site 585057003246 Switch I region; other site 585057003247 G3 box; other site 585057003248 Switch II region; other site 585057003249 G4 box; other site 585057003250 G5 box; other site 585057003251 Predicted GTPase [General function prediction only]; Region: COG3596 585057003252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057003253 YfjP GTPase; Region: YfjP; cd11383 585057003254 G1 box; other site 585057003255 GTP/Mg2+ binding site [chemical binding]; other site 585057003256 Switch I region; other site 585057003257 G2 box; other site 585057003258 Switch II region; other site 585057003259 G3 box; other site 585057003260 G4 box; other site 585057003261 G5 box; other site 585057003262 envelope glycoprotein I; Provisional; Region: PHA03291 585057003263 similar to hypothetical protein; Evidence 6 : Doubtful CDS 585057003264 Integrase core domain; Region: rve; pfam00665 585057003265 Integrase core domain; Region: rve_3; pfam13683 585057003266 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057003267 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 585057003268 putative active site [active] 585057003269 putative NTP binding site [chemical binding]; other site 585057003270 putative nucleic acid binding site [nucleotide binding]; other site 585057003271 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057003272 fragment of transposase ORF B, IS3 family (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057003273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057003274 Transposase; Region: HTH_Tnp_1; cl17663 585057003275 fragment of putative phosphotriesterase-related protein (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057003276 putative transposase OrfB; Reviewed; Region: PHA02517 585057003277 HTH-like domain; Region: HTH_21; pfam13276 585057003278 Integrase core domain; Region: rve; pfam00665 585057003279 Integrase core domain; Region: rve_3; pfam13683 585057003280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057003281 Transposase; Region: HTH_Tnp_1; pfam01527 585057003282 putative phosphotriesterase-related protein (fragment 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057003283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 585057003284 Protein of unknown function, DUF606; Region: DUF606; pfam04657 585057003285 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 585057003286 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057003287 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 585057003288 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 585057003289 substrate binding site [chemical binding]; other site 585057003290 dimer interface [polypeptide binding]; other site 585057003291 ATP binding site [chemical binding]; other site 585057003292 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 585057003293 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 585057003294 putative trimer interface [polypeptide binding]; other site 585057003295 putative CoA binding site [chemical binding]; other site 585057003296 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 585057003297 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 585057003298 DXD motif; other site 585057003299 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 585057003300 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 585057003301 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 585057003302 Active Sites [active] 585057003303 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 585057003304 Transposase; Region: HTH_Tnp_1; cl17663 585057003305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057003306 putative transposase OrfB; Reviewed; Region: PHA02517 585057003307 HTH-like domain; Region: HTH_21; pfam13276 585057003308 Integrase core domain; Region: rve; pfam00665 585057003309 Integrase core domain; Region: rve_3; pfam13683 585057003310 immunoglobulin-binding regulator (fragment 1);Evidence 7 : Gene remnant; PubMedId : 12057959; Product type r : regulator 585057003311 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 585057003312 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 585057003313 N-terminal plug; other site 585057003314 ligand-binding site [chemical binding]; other site 585057003315 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 585057003316 homotrimer interface [polypeptide binding]; other site 585057003317 Walker A motif; other site 585057003318 GTP binding site [chemical binding]; other site 585057003319 Walker B motif; other site 585057003320 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 585057003321 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 585057003322 putative dimer interface [polypeptide binding]; other site 585057003323 active site pocket [active] 585057003324 putative cataytic base [active] 585057003325 L,D-transpeptidase; Provisional; Region: PRK10190 585057003326 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057003327 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 585057003328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057003329 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 585057003330 putative dimerization interface [polypeptide binding]; other site 585057003331 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 585057003332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057003333 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 585057003334 putative substrate binding site [chemical binding]; other site 585057003335 dimerization interface [polypeptide binding]; other site 585057003336 MATE family multidrug exporter; Provisional; Region: PRK10189 585057003337 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 585057003338 hypothetical protein; Provisional; Region: PRK12378 585057003339 AMP nucleosidase; Provisional; Region: PRK08292 585057003340 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 585057003341 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 585057003342 shikimate transporter; Provisional; Region: PRK09952 585057003343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057003344 putative substrate translocation pore; other site 585057003345 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 585057003346 fragment of adhesin (part 2);Evidence 7 : Gene remnant; Product type f : factor 585057003347 fragment of adhesin (part 1);Evidence 7 : Gene remnant; Product type f : factor 585057003348 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 585057003349 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 585057003350 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 585057003351 N-terminal plug; other site 585057003352 ligand-binding site [chemical binding]; other site 585057003353 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 585057003354 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 585057003355 acyl-activating enzyme (AAE) consensus motif; other site 585057003356 active site 585057003357 AMP binding site [chemical binding]; other site 585057003358 substrate binding site [chemical binding]; other site 585057003359 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 585057003360 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 585057003361 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 585057003362 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057003363 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 585057003364 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 585057003365 active site 585057003366 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 585057003367 Methyltransferase domain; Region: Methyltransf_12; pfam08242 585057003368 Methyltransferase domain; Region: Methyltransf_23; pfam13489 585057003369 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 585057003370 short chain dehydrogenase; Region: adh_short; pfam00106 585057003371 NADP binding site [chemical binding]; other site 585057003372 active site 585057003373 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057003374 Condensation domain; Region: Condensation; cl19241 585057003375 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 585057003376 Nonribosomal peptide synthase; Region: NRPS; pfam08415 585057003377 Methyltransferase domain; Region: Methyltransf_12; pfam08242 585057003378 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057003379 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 585057003380 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 585057003381 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 585057003382 Condensation domain; Region: Condensation; pfam00668 585057003383 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 585057003384 Nonribosomal peptide synthase; Region: NRPS; pfam08415 585057003385 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 585057003386 acyl-activating enzyme (AAE) consensus motif; other site 585057003387 AMP binding site [chemical binding]; other site 585057003388 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 585057003389 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 585057003390 S-adenosylmethionine binding site [chemical binding]; other site 585057003391 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 585057003392 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057003393 Condensation domain; Region: Condensation; cl19241 585057003394 Nonribosomal peptide synthase; Region: NRPS; pfam08415 585057003395 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057003396 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057003397 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057003398 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 585057003399 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057003400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057003401 Walker A/P-loop; other site 585057003402 ATP binding site [chemical binding]; other site 585057003403 Q-loop/lid; other site 585057003404 ABC transporter signature motif; other site 585057003405 Walker B; other site 585057003406 D-loop; other site 585057003407 H-loop/switch region; other site 585057003408 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 585057003409 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057003410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057003411 Walker A/P-loop; other site 585057003412 ATP binding site [chemical binding]; other site 585057003413 Q-loop/lid; other site 585057003414 ABC transporter signature motif; other site 585057003415 Walker B; other site 585057003416 D-loop; other site 585057003417 H-loop/switch region; other site 585057003418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057003419 putative substrate translocation pore; other site 585057003420 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 585057003421 salicylate synthase Irp9; Reviewed; Region: PRK06772 585057003422 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 585057003423 integrase; Provisional; Region: PRK09692 585057003424 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 585057003425 active site 585057003426 Int/Topo IB signature motif; other site 585057003427 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 585057003428 zinc/cadmium-binding protein; Provisional; Region: PRK10306 585057003429 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 585057003430 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 585057003431 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 585057003432 Moco binding site; other site 585057003433 metal coordination site [ion binding]; other site 585057003434 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 585057003435 active site 585057003436 homotetramer interface [polypeptide binding]; other site 585057003437 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 585057003438 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 585057003439 active site 585057003440 phosphorylation site [posttranslational modification] 585057003441 intermolecular recognition site; other site 585057003442 dimerization interface [polypeptide binding]; other site 585057003443 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 585057003444 DNA binding site [nucleotide binding] 585057003445 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 585057003446 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 585057003447 dimer interface [polypeptide binding]; other site 585057003448 phosphorylation site [posttranslational modification] 585057003449 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 585057003450 ATP binding site [chemical binding]; other site 585057003451 Mg2+ binding site [ion binding]; other site 585057003452 G-X-G motif; other site 585057003453 chaperone protein HchA; Provisional; Region: PRK04155 585057003454 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 585057003455 conserved cys residue [active] 585057003456 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 585057003457 trimer interface [polypeptide binding]; other site 585057003458 eyelet of channel; other site 585057003459 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 585057003460 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 585057003461 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057003462 Zn2+ binding site [ion binding]; other site 585057003463 Mg2+ binding site [ion binding]; other site 585057003464 DNA cytosine methylase; Provisional; Region: PRK10458 585057003465 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 585057003466 cofactor binding site; other site 585057003467 DNA binding site [nucleotide binding] 585057003468 substrate interaction site [chemical binding]; other site 585057003469 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 585057003470 additional DNA contacts [nucleotide binding]; other site 585057003471 mismatch recognition site; other site 585057003472 active site 585057003473 zinc binding site [ion binding]; other site 585057003474 DNA intercalation site [nucleotide binding]; other site 585057003475 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 585057003476 EamA-like transporter family; Region: EamA; pfam00892 585057003477 EamA-like transporter family; Region: EamA; pfam00892 585057003478 hypothetical protein; Provisional; Region: PRK10062 585057003479 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 585057003480 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 585057003481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057003482 metal binding site [ion binding]; metal-binding site 585057003483 active site 585057003484 I-site; other site 585057003485 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 585057003486 mannosyl-3-phosphoglycerate phosphatase family; Region: HAD-SF-IIB-MPGP; TIGR01486 585057003487 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 585057003488 active site 585057003489 motif I; other site 585057003490 motif II; other site 585057003491 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 585057003492 hypothetical protein; Provisional; Region: PRK10708 585057003493 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 585057003494 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 585057003495 DNA binding residues [nucleotide binding] 585057003496 dimerization interface [polypeptide binding]; other site 585057003497 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 585057003498 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 585057003499 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 585057003500 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 585057003501 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 585057003502 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 585057003503 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 585057003504 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 585057003505 flagellar hook-length control protein; Provisional; Region: PRK10118 585057003506 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 585057003507 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 585057003508 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 585057003509 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 585057003510 Walker A motif/ATP binding site; other site 585057003511 Walker B motif; other site 585057003512 flagellar assembly protein H; Validated; Region: fliH; PRK05687 585057003513 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 585057003514 Flagellar assembly protein FliH; Region: FliH; pfam02108 585057003515 fragment of flagellar motor switching and energizing component (part 2);Evidence 7 : Gene remnant; Product type cp : cell process 585057003516 Transposase; Region: HTH_Tnp_1; cl17663 585057003517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057003518 putative transposase OrfB; Reviewed; Region: PHA02517 585057003519 HTH-like domain; Region: HTH_21; pfam13276 585057003520 Integrase core domain; Region: rve; pfam00665 585057003521 Integrase core domain; Region: rve_3; pfam13683 585057003522 fragment of flagellar motor switching and energizing component (part 1);Evidence 7 : Gene remnant; Product type cp : cell process 585057003523 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 585057003524 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 585057003525 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 585057003526 flagellar hook-basal body complex protein FliE; Region: fliE; TIGR00205 585057003527 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 585057003528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057003529 Coenzyme A binding pocket [chemical binding]; other site 585057003530 hypothetical protein; Provisional; Region: PRK09951 585057003531 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 585057003532 CPxP motif; other site 585057003533 putative inner membrane protein; Provisional; Region: PRK11099 585057003534 Predicted transporter component [General function prediction only]; Region: COG2391 585057003535 lipoprotein; Provisional; Region: PRK10397 585057003536 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 585057003537 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 585057003538 active site 585057003539 Na/Ca binding site [ion binding]; other site 585057003540 catalytic site [active] 585057003541 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 585057003542 Flagellar protein FliS; Region: FliS; cl00654 585057003543 flagellar capping protein; Reviewed; Region: fliD; PRK08032 585057003544 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 585057003545 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 585057003546 flagellin; Validated; Region: PRK08026 585057003547 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 585057003548 Flagellin protein; Region: FliC; pfam12445 585057003549 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 585057003550 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 585057003551 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057003552 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 585057003553 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 585057003554 DNA binding residues [nucleotide binding] 585057003555 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 585057003556 cystine transporter subunit; Provisional; Region: PRK11260 585057003557 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 585057003558 substrate binding pocket [chemical binding]; other site 585057003559 membrane-bound complex binding site; other site 585057003560 hinge residues; other site 585057003561 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 585057003562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057003563 catalytic residue [active] 585057003564 amino acid ABC transporter permease; Provisional; Region: PRK15100 585057003565 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 585057003566 dimer interface [polypeptide binding]; other site 585057003567 conserved gate region; other site 585057003568 putative PBP binding loops; other site 585057003569 ABC-ATPase subunit interface; other site 585057003570 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 585057003571 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585057003572 Walker A/P-loop; other site 585057003573 ATP binding site [chemical binding]; other site 585057003574 Q-loop/lid; other site 585057003575 ABC transporter signature motif; other site 585057003576 Walker B; other site 585057003577 D-loop; other site 585057003578 H-loop/switch region; other site 585057003579 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 585057003580 Autoinducer binding domain; Region: Autoind_bind; pfam03472 585057003581 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 585057003582 DNA binding residues [nucleotide binding] 585057003583 dimerization interface [polypeptide binding]; other site 585057003584 hypothetical protein; Provisional; Region: PRK10613 585057003585 response regulator; Provisional; Region: PRK09483 585057003586 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 585057003587 active site 585057003588 phosphorylation site [posttranslational modification] 585057003589 intermolecular recognition site; other site 585057003590 dimerization interface [polypeptide binding]; other site 585057003591 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 585057003592 DNA binding residues [nucleotide binding] 585057003593 dimerization interface [polypeptide binding]; other site 585057003594 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 585057003595 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 585057003596 GIY-YIG motif/motif A; other site 585057003597 active site 585057003598 catalytic site [active] 585057003599 putative DNA binding site [nucleotide binding]; other site 585057003600 metal binding site [ion binding]; metal-binding site 585057003601 UvrB/uvrC motif; Region: UVR; pfam02151 585057003602 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 585057003603 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 585057003604 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 585057003605 hypothetical protein; Provisional; Region: PRK10396 585057003606 yecA family protein; Region: ygfB_yecA; TIGR02292 585057003607 SEC-C motif; Region: SEC-C; cl19389 585057003608 tyrosine transporter TyrP; Provisional; Region: PRK15132 585057003609 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057003610 probable metal-binding protein; Region: matur_matur; TIGR03853 585057003611 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 585057003612 Ferritin-like domain; Region: Ferritin; pfam00210 585057003613 ferroxidase diiron center [ion binding]; other site 585057003614 YecR-like lipoprotein; Region: YecR; pfam13992 585057003615 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 585057003616 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 585057003617 Ferritin-like domain; Region: Ferritin; pfam00210 585057003618 ferroxidase diiron center [ion binding]; other site 585057003619 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 585057003620 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 585057003621 ligand binding site [chemical binding]; other site 585057003622 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 585057003623 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057003624 Walker A/P-loop; other site 585057003625 ATP binding site [chemical binding]; other site 585057003626 Q-loop/lid; other site 585057003627 ABC transporter signature motif; other site 585057003628 Walker B; other site 585057003629 D-loop; other site 585057003630 H-loop/switch region; other site 585057003631 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057003632 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 585057003633 TM-ABC transporter signature motif; other site 585057003634 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 585057003635 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 585057003636 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 585057003637 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 585057003638 active site 585057003639 homotetramer interface [polypeptide binding]; other site 585057003640 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 585057003641 Ligand Binding Site [chemical binding]; other site 585057003642 transcriptional activator FlhD; Provisional; Region: PRK02909 585057003643 fragment of DNA-binding transcriptional dual regulator with FlhD (part 1);Evidence 7 : Gene remnant; Product type r : regulator 585057003644 fragment of DNA-binding transcriptional dual regulator with FlhD (part 2);Evidence 7 : Gene remnant; Product type r : regulator 585057003645 flagellar motor protein MotA; Validated; Region: PRK09110 585057003646 flagellar motor protein MotB; Validated; Region: motB; PRK09041 585057003647 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 585057003648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057003649 ligand binding site [chemical binding]; other site 585057003650 chemotaxis protein CheA; Provisional; Region: PRK10547 585057003651 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 585057003652 putative binding surface; other site 585057003653 active site 585057003654 CheY binding; Region: CheY-binding; pfam09078 585057003655 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 585057003656 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 585057003657 ATP binding site [chemical binding]; other site 585057003658 Mg2+ binding site [ion binding]; other site 585057003659 G-X-G motif; other site 585057003660 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 585057003661 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 585057003662 putative CheA interaction surface; other site 585057003663 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 585057003664 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 585057003665 dimer interface [polypeptide binding]; other site 585057003666 ligand binding site [chemical binding]; other site 585057003667 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 585057003668 dimerization interface [polypeptide binding]; other site 585057003669 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585057003670 dimer interface [polypeptide binding]; other site 585057003671 putative CheW interface [polypeptide binding]; other site 585057003672 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 585057003673 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 585057003674 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 585057003675 S-adenosylmethionine binding site [chemical binding]; other site 585057003676 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 585057003677 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 585057003678 active site 585057003679 phosphorylation site [posttranslational modification] 585057003680 intermolecular recognition site; other site 585057003681 dimerization interface [polypeptide binding]; other site 585057003682 CheB methylesterase; Region: CheB_methylest; pfam01339 585057003683 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 585057003684 active site 585057003685 phosphorylation site [posttranslational modification] 585057003686 intermolecular recognition site; other site 585057003687 dimerization interface [polypeptide binding]; other site 585057003688 chemotaxis regulator CheZ; Provisional; Region: PRK11166 585057003689 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 585057003690 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 585057003691 Flagellar protein FlhE; Region: FlhE; pfam06366 585057003692 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 585057003693 arginyl-tRNA synthetase; Region: argS; TIGR00456 585057003694 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 585057003695 active site 585057003696 HIGH motif; other site 585057003697 KMSK motif region; other site 585057003698 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 585057003699 tRNA binding surface [nucleotide binding]; other site 585057003700 anticodon binding site; other site 585057003701 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 585057003702 putative metal binding site [ion binding]; other site 585057003703 copper homeostasis protein CutC; Provisional; Region: PRK11572 585057003704 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 585057003705 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 585057003706 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 585057003707 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 585057003708 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 585057003709 molybdopterin cofactor binding site [chemical binding]; other site 585057003710 substrate binding site [chemical binding]; other site 585057003711 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 585057003712 molybdopterin cofactor binding site; other site 585057003713 tRNA (mo5U34)-methyltransferase; Region: TIGR00452 585057003714 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 585057003715 S-adenosylmethionine binding site [chemical binding]; other site 585057003716 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 585057003717 S-adenosylmethionine binding site [chemical binding]; other site 585057003718 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 585057003719 hypothetical protein; Provisional; Region: PRK10302 585057003720 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 585057003721 catalytic triad [active] 585057003722 conserved cis-peptide bond; other site 585057003723 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 585057003724 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 585057003725 dimer interface [polypeptide binding]; other site 585057003726 anticodon binding site; other site 585057003727 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 585057003728 homodimer interface [polypeptide binding]; other site 585057003729 motif 1; other site 585057003730 active site 585057003731 motif 2; other site 585057003732 GAD domain; Region: GAD; pfam02938 585057003733 motif 3; other site 585057003734 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 585057003735 nudix motif; other site 585057003736 hypothetical protein; Validated; Region: PRK00110 585057003737 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 585057003738 active site 585057003739 putative DNA-binding cleft [nucleotide binding]; other site 585057003740 dimer interface [polypeptide binding]; other site 585057003741 hypothetical protein; Provisional; Region: PRK11470 585057003742 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 585057003743 RuvA N terminal domain; Region: RuvA_N; pfam01330 585057003744 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 585057003745 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 585057003746 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 585057003747 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 585057003748 Walker A motif; other site 585057003749 ATP binding site [chemical binding]; other site 585057003750 Walker B motif; other site 585057003751 arginine finger; other site 585057003752 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 585057003753 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 585057003754 ABC-ATPase subunit interface; other site 585057003755 dimer interface [polypeptide binding]; other site 585057003756 putative PBP binding regions; other site 585057003757 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 585057003758 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 585057003759 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 585057003760 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 585057003761 metal binding site [ion binding]; metal-binding site 585057003762 putative peptidase; Provisional; Region: PRK11649 585057003763 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 585057003764 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057003765 Peptidase family M23; Region: Peptidase_M23; pfam01551 585057003766 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 585057003767 putative acyl-acceptor binding pocket; other site 585057003768 pyruvate kinase; Provisional; Region: PRK05826 585057003769 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 585057003770 domain interfaces; other site 585057003771 active site 585057003772 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 585057003773 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 585057003774 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 585057003775 putative active site [active] 585057003776 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 585057003777 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 585057003778 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 585057003779 phosphogluconate dehydratase; Validated; Region: PRK09054 585057003780 Entner-Doudoroff aldolase; Region: eda; TIGR01182 585057003781 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 585057003782 active site 585057003783 intersubunit interface [polypeptide binding]; other site 585057003784 catalytic residue [active] 585057003785 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 585057003786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057003787 ATP-grasp domain; Region: ATP-grasp; pfam02222 585057003788 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 585057003789 hypothetical protein; Provisional; Region: PRK13680 585057003790 Protein of unknown function (DUF533); Region: DUF533; pfam04391 585057003791 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 585057003792 putative metal binding site [ion binding]; other site 585057003793 protease 2; Provisional; Region: PRK10115 585057003794 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 585057003795 exodeoxyribonuclease X; Provisional; Region: PRK07983 585057003796 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 585057003797 active site 585057003798 catalytic site [active] 585057003799 substrate binding site [chemical binding]; other site 585057003800 Predicted amidohydrolase [General function prediction only]; Region: COG0388 585057003801 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 585057003802 hypothetical protein; Provisional; Region: PRK10301 585057003803 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 585057003804 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 585057003805 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 585057003806 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 585057003807 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 585057003808 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 585057003809 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 585057003810 S-adenosylmethionine binding site [chemical binding]; other site 585057003811 Uncharacterized conserved protein [Function unknown]; Region: COG3270 585057003812 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 585057003813 mce related protein; Region: MCE; pfam02470 585057003814 mce related protein; Region: MCE; pfam02470 585057003815 mce related protein; Region: MCE; pfam02470 585057003816 mce related protein; Region: MCE; pfam02470 585057003817 mce related protein; Region: MCE; pfam02470 585057003818 mce related protein; Region: MCE; pfam02470 585057003819 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 585057003820 Paraquat-inducible protein A; Region: PqiA; pfam04403 585057003821 Paraquat-inducible protein A; Region: PqiA; pfam04403 585057003822 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 585057003823 ProP expression regulator; Provisional; Region: PRK04950 585057003824 putative RNA binding sites [nucleotide binding]; other site 585057003825 carboxy-terminal protease; Provisional; Region: PRK11186 585057003826 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 585057003827 protein binding site [polypeptide binding]; other site 585057003828 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 585057003829 Catalytic dyad [active] 585057003830 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 585057003831 heat shock protein HtpX; Provisional; Region: PRK05457 585057003832 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057003833 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057003834 putative substrate translocation pore; other site 585057003835 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 585057003836 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 585057003837 dimerization interface [polypeptide binding]; other site 585057003838 putative Zn2+ binding site [ion binding]; other site 585057003839 putative DNA binding site [nucleotide binding]; other site 585057003840 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057003841 YobH-like protein; Region: YobH; pfam13996 585057003842 YebO-like protein; Region: YebO; pfam13974 585057003843 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 585057003844 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 585057003845 DNA-binding site [nucleotide binding]; DNA binding site 585057003846 RNA-binding motif; other site 585057003847 Methyltransferase domain; Region: Methyltransf_31; pfam13847 585057003848 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 585057003849 S-adenosylmethionine binding site [chemical binding]; other site 585057003850 hypothetical protein; Provisional; Region: PRK11469 585057003851 Domain of unknown function DUF; Region: DUF204; pfam02659 585057003852 Domain of unknown function DUF; Region: DUF204; pfam02659 585057003853 hypothetical protein; Provisional; Region: PRK02913 585057003854 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 585057003855 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 585057003856 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 585057003857 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 585057003858 active pocket/dimerization site; other site 585057003859 active site 585057003860 phosphorylation site [posttranslational modification] 585057003861 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 585057003862 active site 585057003863 phosphorylation site [posttranslational modification] 585057003864 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 585057003865 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 585057003866 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 585057003867 Transporter associated domain; Region: CorC_HlyC; smart01091 585057003868 phage resistance protein; Provisional; Region: PRK10551 585057003869 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057003870 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 585057003871 L-serine deaminase; Provisional; Region: PRK15023 585057003872 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 585057003873 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 585057003874 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 585057003875 putative active site [active] 585057003876 putative CoA binding site [chemical binding]; other site 585057003877 nudix motif; other site 585057003878 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 585057003879 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 585057003880 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 585057003881 hypothetical protein; Provisional; Region: PRK05114 585057003882 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 585057003883 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 585057003884 homotrimer interaction site [polypeptide binding]; other site 585057003885 putative active site [active] 585057003886 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 585057003887 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 585057003888 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 585057003889 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 585057003890 Glycoprotease family; Region: Peptidase_M22; pfam00814 585057003891 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 585057003892 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 585057003893 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 585057003894 acyl-activating enzyme (AAE) consensus motif; other site 585057003895 putative AMP binding site [chemical binding]; other site 585057003896 putative active site [active] 585057003897 putative CoA binding site [chemical binding]; other site 585057003898 ribonuclease D; Provisional; Region: PRK10829 585057003899 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 585057003900 catalytic site [active] 585057003901 putative active site [active] 585057003902 putative substrate binding site [chemical binding]; other site 585057003903 Helicase and RNase D C-terminal; Region: HRDC; smart00341 585057003904 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 585057003905 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 585057003906 FMN-binding pocket [chemical binding]; other site 585057003907 flavin binding motif; other site 585057003908 phosphate binding motif [ion binding]; other site 585057003909 beta-alpha-beta structure motif; other site 585057003910 NAD binding pocket [chemical binding]; other site 585057003911 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 585057003912 catalytic loop [active] 585057003913 iron binding site [ion binding]; other site 585057003914 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 585057003915 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 585057003916 [2Fe-2S] cluster binding site [ion binding]; other site 585057003917 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 585057003918 putative alpha subunit interface [polypeptide binding]; other site 585057003919 putative active site [active] 585057003920 putative substrate binding site [chemical binding]; other site 585057003921 Fe binding site [ion binding]; other site 585057003922 putative transporter; Provisional; Region: PRK09950 585057003923 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 585057003924 transcriptional activator TtdR; Provisional; Region: PRK09801 585057003925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057003926 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 585057003927 putative effector binding pocket; other site 585057003928 putative dimerization interface [polypeptide binding]; other site 585057003929 leucine export protein LeuE; Provisional; Region: PRK10958 585057003930 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 585057003931 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 585057003932 hypothetical protein; Provisional; Region: PRK10457 585057003933 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 585057003934 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057003935 metal binding site [ion binding]; metal-binding site 585057003936 active site 585057003937 I-site; other site 585057003938 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 585057003939 Uncharacterized conserved protein [Function unknown]; Region: COG3189 585057003940 cyanate transporter; Region: CynX; TIGR00896 585057003941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057003942 putative substrate translocation pore; other site 585057003943 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057003944 Predicted membrane protein [Function unknown]; Region: COG2707 585057003945 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 585057003946 putative deacylase active site [active] 585057003947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057003948 metal binding site [ion binding]; metal-binding site 585057003949 active site 585057003950 I-site; other site 585057003951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057003952 metal binding site [ion binding]; metal-binding site 585057003953 active site 585057003954 I-site; other site 585057003955 Uncharacterized conserved protein [Function unknown]; Region: COG2718 585057003956 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 585057003957 metal ion-dependent adhesion site (MIDAS); other site 585057003958 PrkA family serine protein kinase; Provisional; Region: PRK15455 585057003959 PrkA AAA domain; Region: AAA_PrkA; pfam08298 585057003960 Walker A motif; other site 585057003961 ATP binding site [chemical binding]; other site 585057003962 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 585057003963 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 585057003964 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 585057003965 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057003966 active site 585057003967 catalytic tetrad [active] 585057003968 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 585057003969 active site 585057003970 phosphate binding residues; other site 585057003971 catalytic residues [active] 585057003972 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 585057003973 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 585057003974 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 585057003975 methionine sulfoxide reductase B; Provisional; Region: PRK00222 585057003976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 585057003977 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057003978 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 585057003979 putative NAD(P) binding site [chemical binding]; other site 585057003980 catalytic Zn binding site [ion binding]; other site 585057003981 structural Zn binding site [ion binding]; other site 585057003982 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057003983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057003984 putative substrate translocation pore; other site 585057003985 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057003986 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 585057003987 inhibitor binding site; inhibition site 585057003988 catalytic Zn binding site [ion binding]; other site 585057003989 structural Zn binding site [ion binding]; other site 585057003990 NADP binding site [chemical binding]; other site 585057003991 tetramer interface [polypeptide binding]; other site 585057003992 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 585057003993 intersubunit interface [polypeptide binding]; other site 585057003994 active site 585057003995 zinc binding site [ion binding]; other site 585057003996 Na+ binding site [ion binding]; other site 585057003997 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 585057003998 substrate binding site [chemical binding]; other site 585057003999 ATP binding site [chemical binding]; other site 585057004000 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 585057004001 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057004002 active site 585057004003 catalytic tetrad [active] 585057004004 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057004005 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 585057004006 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057004007 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057004008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057004009 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057004010 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057004011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004012 D-galactonate transporter; Region: 2A0114; TIGR00893 585057004013 putative substrate translocation pore; other site 585057004014 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 585057004015 catalytic triad [active] 585057004016 metal binding site [ion binding]; metal-binding site 585057004017 conserved cis-peptide bond; other site 585057004018 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 585057004019 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 585057004020 active site 585057004021 homodimer interface [polypeptide binding]; other site 585057004022 protease 4; Provisional; Region: PRK10949 585057004023 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 585057004024 tandem repeat interface [polypeptide binding]; other site 585057004025 oligomer interface [polypeptide binding]; other site 585057004026 active site residues [active] 585057004027 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 585057004028 tandem repeat interface [polypeptide binding]; other site 585057004029 oligomer interface [polypeptide binding]; other site 585057004030 active site residues [active] 585057004031 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 585057004032 putative FMN binding site [chemical binding]; other site 585057004033 selenophosphate synthetase; Provisional; Region: PRK00943 585057004034 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 585057004035 dimerization interface [polypeptide binding]; other site 585057004036 putative ATP binding site [chemical binding]; other site 585057004037 DNA topoisomerase III; Provisional; Region: PRK07726 585057004038 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 585057004039 active site 585057004040 putative interdomain interaction site [polypeptide binding]; other site 585057004041 putative metal-binding site [ion binding]; other site 585057004042 putative nucleotide binding site [chemical binding]; other site 585057004043 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 585057004044 domain I; other site 585057004045 DNA binding groove [nucleotide binding] 585057004046 phosphate binding site [ion binding]; other site 585057004047 domain II; other site 585057004048 domain III; other site 585057004049 nucleotide binding site [chemical binding]; other site 585057004050 catalytic site [active] 585057004051 domain IV; other site 585057004052 glutamate dehydrogenase; Provisional; Region: PRK09414 585057004053 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 585057004054 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 585057004055 NAD(P) binding site [chemical binding]; other site 585057004056 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 585057004057 active site 585057004058 8-oxo-dGMP binding site [chemical binding]; other site 585057004059 nudix motif; other site 585057004060 metal binding site [ion binding]; metal-binding site 585057004061 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 585057004062 Rhodanese Homology Domain; Region: RHOD; smart00450 585057004063 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 585057004064 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 585057004065 active site residue [active] 585057004066 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 585057004067 active site residue [active] 585057004068 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 585057004069 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057004070 Walker A/P-loop; other site 585057004071 ATP binding site [chemical binding]; other site 585057004072 Q-loop/lid; other site 585057004073 ABC transporter signature motif; other site 585057004074 Walker B; other site 585057004075 D-loop; other site 585057004076 H-loop/switch region; other site 585057004077 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 585057004078 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 585057004079 dimer interface [polypeptide binding]; other site 585057004080 conserved gate region; other site 585057004081 putative PBP binding loops; other site 585057004082 ABC-ATPase subunit interface; other site 585057004083 hypothetical protein; Provisional; Region: PRK11622 585057004084 Uncharacterized conserved protein [Function unknown]; Region: COG2128 585057004085 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 585057004086 Uncharacterized conserved protein [Function unknown]; Region: COG0398 585057004087 Uncharacterized conserved protein [Function unknown]; Region: COG0398 585057004088 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 585057004089 putative catalytic site [active] 585057004090 putative phosphate binding site [ion binding]; other site 585057004091 active site 585057004092 metal binding site A [ion binding]; metal-binding site 585057004093 DNA binding site [nucleotide binding] 585057004094 putative AP binding site [nucleotide binding]; other site 585057004095 putative metal binding site B [ion binding]; other site 585057004096 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057004097 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 585057004098 inhibitor-cofactor binding pocket; inhibition site 585057004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057004100 catalytic residue [active] 585057004101 arginine succinyltransferase; Provisional; Region: PRK10456 585057004102 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 585057004103 NAD(P) binding site [chemical binding]; other site 585057004104 catalytic residues [active] 585057004105 succinylarginine dihydrolase; Provisional; Region: PRK13281 585057004106 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 585057004107 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 585057004108 putative active site [active] 585057004109 Zn binding site [ion binding]; other site 585057004110 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 585057004111 dimer interface [polypeptide binding]; other site 585057004112 hypothetical protein; Provisional; Region: PRK11396 585057004113 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 585057004114 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 585057004115 GIY-YIG motif/motif A; other site 585057004116 active site 585057004117 catalytic site [active] 585057004118 putative DNA binding site [nucleotide binding]; other site 585057004119 metal binding site [ion binding]; metal-binding site 585057004120 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 585057004121 homodimer interface [polypeptide binding]; other site 585057004122 NAD binding pocket [chemical binding]; other site 585057004123 ATP binding pocket [chemical binding]; other site 585057004124 Mg binding site [ion binding]; other site 585057004125 active-site loop [active] 585057004126 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 585057004127 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 585057004128 active site 585057004129 P-loop; other site 585057004130 phosphorylation site [posttranslational modification] 585057004131 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 585057004132 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 585057004133 methionine cluster; other site 585057004134 active site 585057004135 phosphorylation site [posttranslational modification] 585057004136 metal binding site [ion binding]; metal-binding site 585057004137 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 585057004138 Cupin domain; Region: Cupin_2; cl17218 585057004139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057004140 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 585057004141 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 585057004142 NAD binding site [chemical binding]; other site 585057004143 sugar binding site [chemical binding]; other site 585057004144 divalent metal binding site [ion binding]; other site 585057004145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057004146 dimer interface [polypeptide binding]; other site 585057004147 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 585057004148 putative active site [active] 585057004149 YdjC motif; other site 585057004150 Mg binding site [ion binding]; other site 585057004151 putative homodimer interface [polypeptide binding]; other site 585057004152 hydroperoxidase II; Provisional; Region: katE; PRK11249 585057004153 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 585057004154 tetramer interface [polypeptide binding]; other site 585057004155 heme binding pocket [chemical binding]; other site 585057004156 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 585057004157 domain interactions; other site 585057004158 Cell division activator CedA; Region: CedA; cl11674 585057004159 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 585057004160 inner membrane protein; Provisional; Region: PRK11648 585057004161 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 585057004162 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 585057004163 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 585057004164 motif II; other site 585057004165 YniB-like protein; Region: YniB; pfam14002 585057004166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 585057004167 Phosphotransferase enzyme family; Region: APH; pfam01636 585057004168 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 585057004169 active site 585057004170 substrate binding site [chemical binding]; other site 585057004171 ATP binding site [chemical binding]; other site 585057004172 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 585057004173 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 585057004174 putative substrate binding site [chemical binding]; other site 585057004175 putative ATP binding site [chemical binding]; other site 585057004176 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 585057004177 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 585057004178 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 585057004179 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 585057004180 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 585057004181 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 585057004182 active site 585057004183 dimer interface [polypeptide binding]; other site 585057004184 motif 1; other site 585057004185 motif 2; other site 585057004186 motif 3; other site 585057004187 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 585057004188 anticodon binding site; other site 585057004189 fragment of protein chain initiation factor IF-3 (partial);Evidence 7 : Gene remnant; Product type f : factor 585057004190 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 585057004191 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 585057004192 23S rRNA binding site [nucleotide binding]; other site 585057004193 L21 binding site [polypeptide binding]; other site 585057004194 L13 binding site [polypeptide binding]; other site 585057004195 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 585057004196 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 585057004197 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 585057004198 dimer interface [polypeptide binding]; other site 585057004199 motif 1; other site 585057004200 active site 585057004201 motif 2; other site 585057004202 motif 3; other site 585057004203 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 585057004204 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 585057004205 putative tRNA-binding site [nucleotide binding]; other site 585057004206 B3/4 domain; Region: B3_4; pfam03483 585057004207 tRNA synthetase B5 domain; Region: B5; smart00874 585057004208 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 585057004209 dimer interface [polypeptide binding]; other site 585057004210 motif 1; other site 585057004211 motif 3; other site 585057004212 motif 2; other site 585057004213 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 585057004214 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 585057004215 DNA binding site [nucleotide binding] 585057004216 dimer interface [polypeptide binding]; other site 585057004217 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 585057004218 ABC-ATPase subunit interface; other site 585057004219 dimer interface [polypeptide binding]; other site 585057004220 putative PBP binding regions; other site 585057004221 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 585057004222 catalytic residues [active] 585057004223 dimer interface [polypeptide binding]; other site 585057004224 ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]; Region: BtuD; COG4138 585057004225 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057004226 Walker A/P-loop; other site 585057004227 ATP binding site [chemical binding]; other site 585057004228 Q-loop/lid; other site 585057004229 ABC transporter signature motif; other site 585057004230 Walker B; other site 585057004231 D-loop; other site 585057004232 H-loop/switch region; other site 585057004233 NlpC/P60 family; Region: NLPC_P60; pfam00877 585057004234 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 585057004235 hypothetical protein; Validated; Region: PRK00029 585057004236 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 585057004237 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 585057004238 PEP synthetase regulatory protein; Provisional; Region: PRK05339 585057004239 phosphoenolpyruvate synthase; Validated; Region: PRK06464 585057004240 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 585057004241 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585057004242 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 585057004243 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 585057004244 anion transporter; Region: dass; TIGR00785 585057004245 transmembrane helices; other site 585057004246 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 585057004247 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 585057004248 putative ligand binding site [chemical binding]; other site 585057004249 NAD binding site [chemical binding]; other site 585057004250 catalytic site [active] 585057004251 Domain of unknown function (DUF386); Region: DUF386; cl01047 585057004252 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 585057004253 classical (c) SDRs; Region: SDR_c; cd05233 585057004254 NAD(P) binding site [chemical binding]; other site 585057004255 active site 585057004256 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 585057004257 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 585057004258 acyl-activating enzyme (AAE) consensus motif; other site 585057004259 putative AMP binding site [chemical binding]; other site 585057004260 putative active site [active] 585057004261 putative CoA binding site [chemical binding]; other site 585057004262 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 585057004263 oxidoreductase; Provisional; Region: PRK10015 585057004264 putative oxidoreductase FixC; Provisional; Region: PRK10157 585057004265 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 585057004266 Electron transfer flavoprotein domain; Region: ETF; pfam01012 585057004267 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 585057004268 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 585057004269 Ligand binding site [chemical binding]; other site 585057004270 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057004271 Cupin domain; Region: Cupin_2; pfam07883 585057004272 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 585057004273 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057004274 fragment of putative acyl-CoA dehydrogenase (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057004275 fragment of putative acyl-CoA dehydrogenase (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057004276 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 585057004277 Coenzyme A transferase; Region: CoA_trans; smart00882 585057004278 Coenzyme A transferase; Region: CoA_trans; cl17247 585057004279 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 585057004280 active site 585057004281 catalytic residue [active] 585057004282 dimer interface [polypeptide binding]; other site 585057004283 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 585057004284 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 585057004285 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 585057004286 shikimate binding site; other site 585057004287 NAD(P) binding site [chemical binding]; other site 585057004288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057004290 putative substrate translocation pore; other site 585057004291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004292 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057004293 putative substrate translocation pore; other site 585057004294 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 585057004295 putative inner membrane protein; Provisional; Region: PRK10983 585057004296 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 585057004297 FAD binding domain; Region: FAD_binding_4; pfam01565 585057004298 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 585057004299 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 585057004300 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057004301 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 585057004302 CoenzymeA binding site [chemical binding]; other site 585057004303 subunit interaction site [polypeptide binding]; other site 585057004304 PHB binding site; other site 585057004305 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 585057004306 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 585057004307 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 585057004308 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 585057004309 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 585057004310 Walker A/P-loop; other site 585057004311 ATP binding site [chemical binding]; other site 585057004312 Q-loop/lid; other site 585057004313 ABC transporter signature motif; other site 585057004314 Walker B; other site 585057004315 D-loop; other site 585057004316 H-loop/switch region; other site 585057004317 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 585057004318 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 585057004319 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 585057004320 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057004321 catalytic residue [active] 585057004322 cysteine desufuration protein SufE; Provisional; Region: PRK09296 585057004323 L,D-transpeptidase; Provisional; Region: PRK10260 585057004324 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057004325 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057004326 murein lipoprotein; Provisional; Region: PRK15396 585057004327 pyruvate kinase; Provisional; Region: PRK09206 585057004328 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 585057004329 domain interfaces; other site 585057004330 active site 585057004331 hypothetical protein; Provisional; Region: PRK10292 585057004332 hypothetical protein; Provisional; Region: PRK09898 585057004333 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057004334 putative oxidoreductase; Provisional; Region: PRK09849 585057004335 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 585057004336 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 585057004337 hypothetical protein; Provisional; Region: PRK09947 585057004338 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 585057004339 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 585057004340 hypothetical protein; Provisional; Region: PRK09946 585057004341 hypothetical protein; Provisional; Region: PRK09897 585057004342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 585057004343 putative monooxygenase; Provisional; Region: PRK11118 585057004344 hypothetical protein; Provisional; Region: PRK09945 585057004345 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 585057004346 multidrug efflux protein; Reviewed; Region: PRK01766 585057004347 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 585057004348 cation binding site [ion binding]; other site 585057004349 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 585057004350 Lumazine binding domain; Region: Lum_binding; pfam00677 585057004351 Lumazine binding domain; Region: Lum_binding; pfam00677 585057004352 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 585057004353 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 585057004354 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 585057004355 S-adenosylmethionine binding site [chemical binding]; other site 585057004356 putative transporter; Provisional; Region: PRK11043 585057004357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004358 putative substrate translocation pore; other site 585057004359 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 585057004360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057004361 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 585057004362 dimerization interface [polypeptide binding]; other site 585057004363 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 585057004364 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057004365 DNA binding site [nucleotide binding] 585057004366 domain linker motif; other site 585057004367 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 585057004368 dimerization interface [polypeptide binding]; other site 585057004369 ligand binding site [chemical binding]; other site 585057004370 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 585057004371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004372 putative substrate translocation pore; other site 585057004373 superoxide dismutase; Provisional; Region: PRK10543 585057004374 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 585057004375 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 585057004376 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057004377 NlpC/P60 family; Region: NLPC_P60; pfam00877 585057004378 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 585057004379 putative GSH binding site [chemical binding]; other site 585057004380 catalytic residues [active] 585057004381 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 585057004382 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 585057004383 ATP binding site [chemical binding]; other site 585057004384 putative Mg++ binding site [ion binding]; other site 585057004385 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 585057004386 nucleotide binding region [chemical binding]; other site 585057004387 ATP-binding site [chemical binding]; other site 585057004388 DEAD/H associated; Region: DEAD_assoc; pfam08494 585057004389 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 585057004390 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 585057004391 dimer interface [polypeptide binding]; other site 585057004392 catalytic site [active] 585057004393 putative active site [active] 585057004394 putative substrate binding site [chemical binding]; other site 585057004395 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 585057004396 dimer interface [polypeptide binding]; other site 585057004397 active site 585057004398 metal binding site [ion binding]; metal-binding site 585057004399 glutathione binding site [chemical binding]; other site 585057004400 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 585057004401 FMN binding site [chemical binding]; other site 585057004402 active site 585057004403 substrate binding site [chemical binding]; other site 585057004404 catalytic residue [active] 585057004405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057004406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057004407 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 585057004408 active site 585057004409 catalytic tetrad [active] 585057004410 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 585057004411 E-class dimer interface [polypeptide binding]; other site 585057004412 P-class dimer interface [polypeptide binding]; other site 585057004413 active site 585057004414 Cu2+ binding site [ion binding]; other site 585057004415 Zn2+ binding site [ion binding]; other site 585057004416 Fusaric acid resistance protein family; Region: FUSC; pfam04632 585057004417 Fusaric acid resistance protein-like; Region: FUSC_2; cl19401 585057004418 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 585057004419 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057004420 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057004421 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 585057004422 transcriptional regulator SlyA; Provisional; Region: PRK03573 585057004423 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057004424 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 585057004425 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 585057004426 lysozyme inhibitor; Provisional; Region: PRK11372 585057004427 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 585057004428 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 585057004429 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 585057004430 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 585057004431 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 585057004432 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 585057004433 active site 585057004434 HIGH motif; other site 585057004435 dimer interface [polypeptide binding]; other site 585057004436 KMSKS motif; other site 585057004437 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 585057004438 RNA binding surface [nucleotide binding]; other site 585057004439 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 585057004440 dimer interface [polypeptide binding]; other site 585057004441 pyridoxal binding site [chemical binding]; other site 585057004442 ATP binding site [chemical binding]; other site 585057004443 glutathionine S-transferase; Provisional; Region: PRK10542 585057004444 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 585057004445 C-terminal domain interface [polypeptide binding]; other site 585057004446 GSH binding site (G-site) [chemical binding]; other site 585057004447 dimer interface [polypeptide binding]; other site 585057004448 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 585057004449 N-terminal domain interface [polypeptide binding]; other site 585057004450 dimer interface [polypeptide binding]; other site 585057004451 substrate binding pocket (H-site) [chemical binding]; other site 585057004452 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 585057004453 putative tripeptide transporter permease; Reviewed; Region: tppB; PRK09584 585057004454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004455 putative substrate translocation pore; other site 585057004456 endonuclease III; Provisional; Region: PRK10702 585057004457 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585057004458 minor groove reading motif; other site 585057004459 helix-hairpin-helix signature motif; other site 585057004460 substrate binding pocket [chemical binding]; other site 585057004461 active site 585057004462 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 585057004463 electron transport complex RsxE subunit; Provisional; Region: PRK12405 585057004464 electron transport complex protein RnfG; Validated; Region: PRK01908 585057004465 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 585057004466 electron transport complex protein RnfC; Provisional; Region: PRK05035 585057004467 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 585057004468 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 585057004469 SLBB domain; Region: SLBB; pfam10531 585057004470 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 585057004471 electron transport complex protein RnfB; Provisional; Region: PRK05113 585057004472 Putative Fe-S cluster; Region: FeS; pfam04060 585057004473 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 585057004474 electron transport complex protein RsxA; Provisional; Region: PRK05151 585057004475 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 585057004476 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 585057004477 putative oxidoreductase; Provisional; Region: PRK11579 585057004478 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057004479 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585057004480 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 585057004481 active site 585057004482 purine riboside binding site [chemical binding]; other site 585057004483 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 585057004484 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 585057004485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057004486 homodimer interface [polypeptide binding]; other site 585057004487 catalytic residue [active] 585057004488 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 585057004489 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 585057004490 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 585057004491 active site turn [active] 585057004492 phosphorylation site [posttranslational modification] 585057004493 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 585057004494 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057004495 DNA binding site [nucleotide binding] 585057004496 domain linker motif; other site 585057004497 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 585057004498 putative dimerization interface [polypeptide binding]; other site 585057004499 putative ligand binding site [chemical binding]; other site 585057004500 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057004501 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057004502 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057004503 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 585057004504 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 585057004505 NAD binding site [chemical binding]; other site 585057004506 substrate binding site [chemical binding]; other site 585057004507 homotetramer interface [polypeptide binding]; other site 585057004508 homodimer interface [polypeptide binding]; other site 585057004509 active site 585057004510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057004511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057004512 beta-D-glucuronidase; Provisional; Region: PRK10150 585057004513 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 585057004514 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 585057004515 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 585057004516 glucuronide transporter; Provisional; Region: PRK09848 585057004517 putative symporter YagG; Provisional; Region: PRK09669; cl15392 585057004518 putative outer membrane porin protein; Provisional; Region: PRK11379 585057004519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 585057004520 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 585057004521 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 585057004522 fumarate hydratase; Provisional; Region: PRK15389 585057004523 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 585057004524 Fumarase C-terminus; Region: Fumerase_C; pfam05683 585057004525 fumarate hydratase; Reviewed; Region: fumC; PRK00485 585057004526 Class II fumarases; Region: Fumarase_classII; cd01362 585057004527 active site 585057004528 tetramer interface [polypeptide binding]; other site 585057004529 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 585057004530 sensor protein RstB; Provisional; Region: PRK10604 585057004531 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 585057004532 dimerization interface [polypeptide binding]; other site 585057004533 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 585057004534 dimer interface [polypeptide binding]; other site 585057004535 phosphorylation site [posttranslational modification] 585057004536 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 585057004537 ATP binding site [chemical binding]; other site 585057004538 Mg2+ binding site [ion binding]; other site 585057004539 G-X-G motif; other site 585057004540 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 585057004541 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 585057004542 active site 585057004543 phosphorylation site [posttranslational modification] 585057004544 intermolecular recognition site; other site 585057004545 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 585057004546 DNA binding site [nucleotide binding] 585057004547 GlpM protein; Region: GlpM; pfam06942 585057004548 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 585057004549 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 585057004550 NADP binding site [chemical binding]; other site 585057004551 substrate binding pocket [chemical binding]; other site 585057004552 active site 585057004553 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 585057004554 Spore germination protein; Region: Spore_permease; cl17796 585057004555 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057004556 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057004557 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057004558 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 585057004559 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 585057004560 ligand binding site [chemical binding]; other site 585057004561 homodimer interface [polypeptide binding]; other site 585057004562 NAD(P) binding site [chemical binding]; other site 585057004563 trimer interface B [polypeptide binding]; other site 585057004564 trimer interface A [polypeptide binding]; other site 585057004565 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 585057004566 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 585057004567 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 585057004568 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 585057004569 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 585057004570 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 585057004571 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 585057004572 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057004573 putative substrate translocation pore; other site 585057004574 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 585057004575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057004576 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 585057004577 dimerization interface [polypeptide binding]; other site 585057004578 substrate binding pocket [chemical binding]; other site 585057004579 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 585057004580 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057004581 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057004582 nucleotide binding site [chemical binding]; other site 585057004583 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 585057004584 putative dithiobiotin synthetase; Provisional; Region: PRK12374 585057004585 AAA domain; Region: AAA_26; pfam13500 585057004586 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 585057004587 Cl- selectivity filter; other site 585057004588 Cl- binding residues [ion binding]; other site 585057004589 pore gating glutamate residue; other site 585057004590 dimer interface [polypeptide binding]; other site 585057004591 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 585057004592 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 585057004593 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 585057004594 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057004595 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 585057004596 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 585057004597 putative [Fe4-S4] binding site [ion binding]; other site 585057004598 putative molybdopterin cofactor binding site [chemical binding]; other site 585057004599 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 585057004600 putative molybdopterin cofactor binding site; other site 585057004601 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 585057004602 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 585057004603 putative [Fe4-S4] binding site [ion binding]; other site 585057004604 putative molybdopterin cofactor binding site [chemical binding]; other site 585057004605 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 585057004606 putative molybdopterin cofactor binding site; other site 585057004607 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 585057004608 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 585057004609 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 585057004610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057004611 Coenzyme A binding pocket [chemical binding]; other site 585057004612 hypothetical protein; Provisional; Region: PRK13659 585057004613 hypothetical protein; Provisional; Region: PRK02237 585057004614 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 585057004615 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 585057004616 putative active site pocket [active] 585057004617 putative metal binding site [ion binding]; other site 585057004618 putative oxidoreductase; Provisional; Region: PRK10083 585057004619 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 585057004620 putative NAD(P) binding site [chemical binding]; other site 585057004621 catalytic Zn binding site [ion binding]; other site 585057004622 structural Zn binding site [ion binding]; other site 585057004623 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 585057004624 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 585057004625 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 585057004626 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 585057004627 Int/Topo IB signature motif; other site 585057004628 Putative excisionase of cryptic prophage (partial);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 585057004629 putative exonuclease from phage origin (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057004630 Transposase; Region: HTH_Tnp_1; cl17663 585057004631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057004632 HTH-like domain; Region: HTH_21; pfam13276 585057004633 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057004634 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 585057004635 putative active site [active] 585057004636 putative NTP binding site [chemical binding]; other site 585057004637 putative nucleic acid binding site [nucleotide binding]; other site 585057004638 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057004639 Integrase core domain; Region: rve; pfam00665 585057004640 Integrase core domain; Region: rve_3; pfam13683 585057004641 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 585057004642 primosomal protein DnaI; Provisional; Region: PRK02854 585057004643 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 585057004644 Methyltransferase domain; Region: Methyltransf_25; pfam13649 585057004645 Homeodomain-like domain; Region: HTH_23; pfam13384 585057004646 Winged helix-turn helix; Region: HTH_29; pfam13551 585057004647 Homeodomain-like domain; Region: HTH_32; pfam13565 585057004648 Integrase core domain; Region: rve; pfam00665 585057004649 Integrase core domain; Region: rve_3; cl15866 585057004650 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057004651 Transposase; Region: HTH_Tnp_1; pfam01527 585057004652 putative transposase OrfB; Reviewed; Region: PHA02517 585057004653 HTH-like domain; Region: HTH_21; pfam13276 585057004654 Integrase core domain; Region: rve; pfam00665 585057004655 Integrase core domain; Region: rve_3; pfam13683 585057004656 Antitermination protein; Region: Antiterm; pfam03589 585057004657 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 585057004658 transposase/IS protein; Provisional; Region: PRK09183 585057004659 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 585057004660 Walker A motif; other site 585057004661 ATP binding site [chemical binding]; other site 585057004662 Walker B motif; other site 585057004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 585057004664 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 585057004665 DNA-binding interface [nucleotide binding]; DNA binding site 585057004666 Integrase core domain; Region: rve; pfam00665 585057004667 fragment of putative antitermination protein Q; Qin prophage (partial);Evidence 7 : Gene remnant; Product type pf : putative factor 585057004668 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 585057004669 DNA-binding site [nucleotide binding]; DNA binding site 585057004670 RNA-binding motif; other site 585057004671 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 585057004672 DNA-binding site [nucleotide binding]; DNA binding site 585057004673 RNA-binding motif; other site 585057004674 Lysis protein S; Region: Lysis_S; pfam04971 585057004675 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 585057004676 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 585057004677 catalytic residues [active] 585057004678 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 585057004679 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 585057004680 DNA-binding site [nucleotide binding]; DNA binding site 585057004681 RNA-binding motif; other site 585057004682 GnsA/GnsB family; Region: GnsAB; pfam08178 585057004683 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 585057004684 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 585057004685 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 585057004686 gpW; Region: gpW; pfam02831 585057004687 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 585057004688 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 585057004689 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 585057004690 tandem repeat interface [polypeptide binding]; other site 585057004691 oligomer interface [polypeptide binding]; other site 585057004692 active site residues [active] 585057004693 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 585057004694 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 585057004695 DNA packaging protein FI; Region: Packaging_FI; pfam14000 585057004696 Integrase core domain; Region: rve; pfam00665 585057004697 Integrase core domain; Region: rve_3; pfam13683 585057004698 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057004699 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 585057004700 putative active site [active] 585057004701 putative NTP binding site [chemical binding]; other site 585057004702 putative nucleic acid binding site [nucleotide binding]; other site 585057004703 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057004704 HTH-like domain; Region: HTH_21; pfam13276 585057004705 Transposase; Region: HTH_Tnp_1; cl17663 585057004706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057004707 Conserved hypothetical protein, putative invasion antigen (partial);Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12704152 585057004708 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 585057004709 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 585057004710 TrkA-C domain; Region: TrkA_C; pfam02080 585057004711 Transporter associated domain; Region: CorC_HlyC; smart01091 585057004712 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 585057004713 dimer interface [polypeptide binding]; other site 585057004714 catalytic triad [active] 585057004715 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 585057004716 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057004717 catalytic residue [active] 585057004718 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 585057004719 Flagellar regulator YcgR; Region: YcgR; pfam07317 585057004720 PilZ domain; Region: PilZ; pfam07238 585057004721 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 585057004722 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 585057004723 N-terminal plug; other site 585057004724 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 585057004725 ligand-binding site [chemical binding]; other site 585057004726 molybdenum transport protein ModD; Provisional; Region: PRK06096 585057004727 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 585057004728 dimerization interface [polypeptide binding]; other site 585057004729 active site 585057004730 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 585057004731 S-adenosylmethionine binding site [chemical binding]; other site 585057004732 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 585057004733 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057004734 Walker A/P-loop; other site 585057004735 ATP binding site [chemical binding]; other site 585057004736 Q-loop/lid; other site 585057004737 ABC transporter signature motif; other site 585057004738 Walker B; other site 585057004739 D-loop; other site 585057004740 H-loop/switch region; other site 585057004741 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 585057004742 ABC-ATPase subunit interface; other site 585057004743 dimer interface [polypeptide binding]; other site 585057004744 putative PBP binding regions; other site 585057004745 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 585057004746 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 585057004747 putative metal binding site [ion binding]; other site 585057004748 trehalase; Provisional; Region: treA; PRK13271 585057004749 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 585057004750 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 585057004751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 585057004752 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 585057004753 dimerization domain swap beta strand [polypeptide binding]; other site 585057004754 regulatory protein interface [polypeptide binding]; other site 585057004755 active site 585057004756 regulatory phosphorylation site [posttranslational modification]; other site 585057004757 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 585057004758 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585057004759 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 585057004760 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 585057004761 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 585057004762 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 585057004763 putative active site [active] 585057004764 heme pocket [chemical binding]; other site 585057004765 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 585057004766 Walker A motif; other site 585057004767 ATP binding site [chemical binding]; other site 585057004768 Walker B motif; other site 585057004769 arginine finger; other site 585057004770 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057004771 Probable pectinesterase/pectinesterase inhibitor; Region: PLN02708 585057004772 GTP-binding protein YchF; Reviewed; Region: PRK09601 585057004773 YchF GTPase; Region: YchF; cd01900 585057004774 G1 box; other site 585057004775 GTP/Mg2+ binding site [chemical binding]; other site 585057004776 Switch I region; other site 585057004777 G2 box; other site 585057004778 Switch II region; other site 585057004779 G3 box; other site 585057004780 G4 box; other site 585057004781 G5 box; other site 585057004782 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 585057004783 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 585057004784 putative active site [active] 585057004785 catalytic residue [active] 585057004786 hypothetical protein; Provisional; Region: PRK10692 585057004787 putative transporter; Provisional; Region: PRK11660 585057004788 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 585057004789 Sulfate transporter family; Region: Sulfate_transp; pfam00916 585057004790 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 585057004791 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 585057004792 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 585057004793 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057004794 active site 585057004795 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 585057004796 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 585057004797 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 585057004798 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 585057004799 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 585057004800 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 585057004801 tRNA; other site 585057004802 putative tRNA binding site [nucleotide binding]; other site 585057004803 putative NADP binding site [chemical binding]; other site 585057004804 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 585057004805 peptide chain release factor 1; Validated; Region: prfA; PRK00591 585057004806 This domain is found in peptide chain release factors; Region: PCRF; smart00937 585057004807 RF-1 domain; Region: RF-1; pfam00472 585057004808 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 585057004809 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; cl17726 585057004810 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 585057004811 S-adenosylmethionine binding site [chemical binding]; other site 585057004812 hypothetical protein; Provisional; Region: PRK10278 585057004813 hypothetical protein; Provisional; Region: PRK10941 585057004814 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 585057004815 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 585057004816 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 585057004817 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 585057004818 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 585057004819 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 585057004820 cation transport regulator; Reviewed; Region: chaB; PRK09582 585057004821 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 585057004822 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 585057004823 putative active site pocket [active] 585057004824 dimerization interface [polypeptide binding]; other site 585057004825 putative catalytic residue [active] 585057004826 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 585057004827 putative invasin; Provisional; Region: PRK10177 585057004828 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 585057004829 transcriptional regulator NarL; Provisional; Region: PRK10651 585057004830 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 585057004831 active site 585057004832 phosphorylation site [posttranslational modification] 585057004833 intermolecular recognition site; other site 585057004834 dimerization interface [polypeptide binding]; other site 585057004835 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 585057004836 DNA binding residues [nucleotide binding] 585057004837 dimerization interface [polypeptide binding]; other site 585057004838 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 585057004839 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 585057004840 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 585057004841 dimerization interface [polypeptide binding]; other site 585057004842 Histidine kinase; Region: HisKA_3; pfam07730 585057004843 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 585057004844 ATP binding site [chemical binding]; other site 585057004845 Mg2+ binding site [ion binding]; other site 585057004846 G-X-G motif; other site 585057004847 lysophospholipid transporter LplT; Provisional; Region: PRK11195; cl19150 585057004848 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 585057004849 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 585057004850 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 585057004851 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 585057004852 [4Fe-4S] binding site [ion binding]; other site 585057004853 molybdopterin cofactor binding site [chemical binding]; other site 585057004854 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 585057004855 molybdopterin cofactor binding site; other site 585057004856 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 585057004857 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057004858 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 585057004859 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 585057004860 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 585057004861 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 585057004862 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 585057004863 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 585057004864 putative active site [active] 585057004865 putative substrate binding site [chemical binding]; other site 585057004866 putative cosubstrate binding site; other site 585057004867 catalytic site [active] 585057004868 hypothetical protein; Provisional; Region: PRK01617 585057004869 SEC-C motif; Region: SEC-C; cl19389 585057004870 SEC-C motif; Region: SEC-C; cl19389 585057004871 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 585057004872 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 585057004873 active site 585057004874 nucleophile elbow; other site 585057004875 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 585057004876 active site 585057004877 response regulator of RpoS; Provisional; Region: PRK10693 585057004878 phosphorylation site [posttranslational modification] 585057004879 intermolecular recognition site; other site 585057004880 dimerization interface [polypeptide binding]; other site 585057004881 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 585057004882 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 585057004883 active site 585057004884 tetramer interface; other site 585057004885 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 585057004886 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 585057004887 thymidine kinase; Provisional; Region: PRK04296 585057004888 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057004889 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057004890 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057004891 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 585057004892 Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins; Region: ALDH_F20_ACDH_EutE-like; cd07081 585057004893 putative catalytic cysteine [active] 585057004894 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 585057004895 putative active site [active] 585057004896 metal binding site [ion binding]; metal-binding site 585057004897 hypothetical protein; Provisional; Region: PRK11111 585057004898 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 585057004899 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 585057004900 peptide binding site [polypeptide binding]; other site 585057004901 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 585057004902 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 585057004903 dimer interface [polypeptide binding]; other site 585057004904 conserved gate region; other site 585057004905 putative PBP binding loops; other site 585057004906 ABC-ATPase subunit interface; other site 585057004907 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 585057004908 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585057004909 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 585057004910 dimer interface [polypeptide binding]; other site 585057004911 conserved gate region; other site 585057004912 putative PBP binding loops; other site 585057004913 ABC-ATPase subunit interface; other site 585057004914 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 585057004915 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057004916 Walker A/P-loop; other site 585057004917 ATP binding site [chemical binding]; other site 585057004918 Q-loop/lid; other site 585057004919 ABC transporter signature motif; other site 585057004920 Walker B; other site 585057004921 D-loop; other site 585057004922 H-loop/switch region; other site 585057004923 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057004924 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 585057004925 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057004926 Walker A/P-loop; other site 585057004927 ATP binding site [chemical binding]; other site 585057004928 Q-loop/lid; other site 585057004929 ABC transporter signature motif; other site 585057004930 Walker B; other site 585057004931 D-loop; other site 585057004932 H-loop/switch region; other site 585057004933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057004934 dsDNA-mimic protein; Reviewed; Region: PRK05094 585057004935 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 585057004936 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 585057004937 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 585057004938 putative active site [active] 585057004939 catalytic site [active] 585057004940 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 585057004941 putative active site [active] 585057004942 catalytic site [active] 585057004943 voltage-gated potassium channel; Provisional; Region: PRK10537 585057004944 Ion channel; Region: Ion_trans_2; pfam07885 585057004945 TrkA-N domain; Region: TrkA_N; pfam02254 585057004946 YciI-like protein; Reviewed; Region: PRK11370 585057004947 transport protein TonB; Provisional; Region: PRK10819 585057004948 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 585057004949 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 585057004950 intracellular septation protein A; Reviewed; Region: PRK00259 585057004951 hypothetical protein; Provisional; Region: PRK02868 585057004952 outer membrane protein W; Provisional; Region: PRK10959 585057004953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 585057004954 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 585057004955 dimerization interface [polypeptide binding]; other site 585057004956 metal binding site [ion binding]; metal-binding site 585057004957 General stress protein [General function prediction only]; Region: GsiB; COG3729 585057004958 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 585057004959 substrate binding site [chemical binding]; other site 585057004960 active site 585057004961 catalytic residues [active] 585057004962 heterodimer interface [polypeptide binding]; other site 585057004963 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 585057004964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057004965 catalytic residue [active] 585057004966 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 585057004967 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 585057004968 active site 585057004969 ribulose/triose binding site [chemical binding]; other site 585057004970 phosphate binding site [ion binding]; other site 585057004971 substrate (anthranilate) binding pocket [chemical binding]; other site 585057004972 product (indole) binding pocket [chemical binding]; other site 585057004973 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 585057004974 active site 585057004975 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 585057004976 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 585057004977 glutamine binding [chemical binding]; other site 585057004978 catalytic triad [active] 585057004979 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 585057004980 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 585057004981 anthranilate synthase component I; Provisional; Region: PRK13564 585057004982 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 585057004983 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 585057004984 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 585057004985 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 585057004986 active site 585057004987 hypothetical protein; Provisional; Region: PRK11630 585057004988 Predicted membrane protein (DUF2207); Region: DUF2207; cl19878 585057004989 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 585057004990 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 585057004991 RNA binding surface [nucleotide binding]; other site 585057004992 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 585057004993 probable active site [active] 585057004994 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 585057004995 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 585057004996 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 585057004997 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 585057004998 homodimer interface [polypeptide binding]; other site 585057004999 Walker A motif; other site 585057005000 ATP binding site [chemical binding]; other site 585057005001 hydroxycobalamin binding site [chemical binding]; other site 585057005002 Walker B motif; other site 585057005003 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 585057005004 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 585057005005 NADP binding site [chemical binding]; other site 585057005006 homodimer interface [polypeptide binding]; other site 585057005007 active site 585057005008 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 585057005009 putative inner membrane peptidase; Provisional; Region: PRK11778 585057005010 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 585057005011 tandem repeat interface [polypeptide binding]; other site 585057005012 oligomer interface [polypeptide binding]; other site 585057005013 active site residues [active] 585057005014 hypothetical protein; Provisional; Region: PRK11037 585057005015 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 585057005016 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 585057005017 active site 585057005018 interdomain interaction site; other site 585057005019 putative metal-binding site [ion binding]; other site 585057005020 nucleotide binding site [chemical binding]; other site 585057005021 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 585057005022 domain I; other site 585057005023 DNA binding groove [nucleotide binding] 585057005024 phosphate binding site [ion binding]; other site 585057005025 domain II; other site 585057005026 domain III; other site 585057005027 nucleotide binding site [chemical binding]; other site 585057005028 catalytic site [active] 585057005029 domain IV; other site 585057005030 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585057005031 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585057005032 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 585057005033 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 585057005034 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 585057005035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057005036 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 585057005037 substrate binding site [chemical binding]; other site 585057005038 putative dimerization interface [polypeptide binding]; other site 585057005039 aconitate hydratase; Validated; Region: PRK09277 585057005040 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 585057005041 substrate binding site [chemical binding]; other site 585057005042 ligand binding site [chemical binding]; other site 585057005043 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 585057005044 substrate binding site [chemical binding]; other site 585057005045 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 585057005046 dimerization interface [polypeptide binding]; other site 585057005047 active site 585057005048 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585057005049 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 585057005050 active site 585057005051 Predicted membrane protein [Function unknown]; Region: COG3771 585057005052 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 585057005053 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 585057005054 TPR motif; other site 585057005055 binding surface 585057005056 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 585057005057 binding surface 585057005058 TPR motif; other site 585057005059 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 585057005060 active site 585057005061 dimer interface [polypeptide binding]; other site 585057005062 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 585057005063 putative rRNA binding site [nucleotide binding]; other site 585057005064 lipoprotein; Provisional; Region: PRK10540 585057005065 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057005066 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 585057005067 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057005068 hypothetical protein; Provisional; Region: PRK13658 585057005069 RNase II stability modulator; Provisional; Region: PRK10060 585057005070 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 585057005071 putative active site [active] 585057005072 heme pocket [chemical binding]; other site 585057005073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057005074 metal binding site [ion binding]; metal-binding site 585057005075 active site 585057005076 I-site; other site 585057005077 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 585057005078 exoribonuclease II; Provisional; Region: PRK05054 585057005079 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 585057005080 RNB domain; Region: RNB; pfam00773 585057005081 S1 RNA binding domain; Region: S1; pfam00575 585057005082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 585057005083 Uncharacterized conserved protein [Function unknown]; Region: COG2128 585057005084 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 585057005085 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 585057005086 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 585057005087 NAD binding site [chemical binding]; other site 585057005088 homotetramer interface [polypeptide binding]; other site 585057005089 homodimer interface [polypeptide binding]; other site 585057005090 substrate binding site [chemical binding]; other site 585057005091 active site 585057005092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057005093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057005094 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 585057005095 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057005096 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057005097 Transposase; Region: HTH_Tnp_1; cl17663 585057005098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005099 HTH-like domain; Region: HTH_21; pfam13276 585057005100 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057005101 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 585057005102 putative active site [active] 585057005103 putative NTP binding site [chemical binding]; other site 585057005104 putative nucleic acid binding site [nucleotide binding]; other site 585057005105 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057005106 Integrase core domain; Region: rve; pfam00665 585057005107 Integrase core domain; Region: rve_3; pfam13683 585057005108 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 585057005109 MMPL family; Region: MMPL; cl14618 585057005110 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 585057005111 Outer membrane efflux protein; Region: OEP; pfam02321 585057005112 Outer membrane efflux protein; Region: OEP; pfam02321 585057005113 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 585057005114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057005115 putative substrate translocation pore; other site 585057005116 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 585057005117 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057005118 Walker A/P-loop; other site 585057005119 ATP binding site [chemical binding]; other site 585057005120 Q-loop/lid; other site 585057005121 ABC transporter signature motif; other site 585057005122 Walker B; other site 585057005123 D-loop; other site 585057005124 H-loop/switch region; other site 585057005125 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 585057005126 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057005127 Walker A/P-loop; other site 585057005128 ATP binding site [chemical binding]; other site 585057005129 Q-loop/lid; other site 585057005130 ABC transporter signature motif; other site 585057005131 Walker B; other site 585057005132 D-loop; other site 585057005133 H-loop/switch region; other site 585057005134 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057005135 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 585057005136 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585057005137 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 585057005138 dimer interface [polypeptide binding]; other site 585057005139 conserved gate region; other site 585057005140 putative PBP binding loops; other site 585057005141 ABC-ATPase subunit interface; other site 585057005142 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 585057005143 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 585057005144 dimer interface [polypeptide binding]; other site 585057005145 conserved gate region; other site 585057005146 putative PBP binding loops; other site 585057005147 ABC-ATPase subunit interface; other site 585057005148 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 585057005149 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 585057005150 peptide binding site [polypeptide binding]; other site 585057005151 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 585057005152 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057005153 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 585057005154 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 585057005155 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 585057005156 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 585057005157 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 585057005158 catalytic triad [active] 585057005159 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 585057005160 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 585057005161 non-specific DNA binding site [nucleotide binding]; other site 585057005162 salt bridge; other site 585057005163 sequence-specific DNA binding site [nucleotide binding]; other site 585057005164 Cupin domain; Region: Cupin_2; pfam07883 585057005165 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 585057005166 NAD(P) binding site [chemical binding]; other site 585057005167 catalytic residues [active] 585057005168 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 585057005169 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 585057005170 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 585057005171 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057005172 inhibitor-cofactor binding pocket; inhibition site 585057005173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057005174 catalytic residue [active] 585057005175 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 585057005176 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 585057005177 Walker A motif; other site 585057005178 ATP binding site [chemical binding]; other site 585057005179 Walker B motif; other site 585057005180 arginine finger; other site 585057005181 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 585057005182 phage shock protein PspA; Provisional; Region: PRK10698 585057005183 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 585057005184 phage shock protein B; Provisional; Region: pspB; PRK09458 585057005185 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 585057005186 phage shock protein C; Region: phageshock_pspC; TIGR02978 585057005187 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 585057005188 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 585057005189 active site residue [active] 585057005190 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 585057005191 sucrose phosphorylase; Provisional; Region: PRK13840 585057005192 active site 585057005193 homodimer interface [polypeptide binding]; other site 585057005194 catalytic site [active] 585057005195 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 585057005196 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 585057005197 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 585057005198 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 585057005199 dimer interface [polypeptide binding]; other site 585057005200 conserved gate region; other site 585057005201 putative PBP binding loops; other site 585057005202 ABC-ATPase subunit interface; other site 585057005203 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 585057005204 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 585057005205 dimer interface [polypeptide binding]; other site 585057005206 conserved gate region; other site 585057005207 putative PBP binding loops; other site 585057005208 ABC-ATPase subunit interface; other site 585057005209 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057005210 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 585057005211 putative NAD(P) binding site [chemical binding]; other site 585057005212 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 585057005213 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 585057005214 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 585057005215 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057005216 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585057005217 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 585057005218 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 585057005219 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 585057005220 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 585057005221 beta-phosphoglucomutase; Region: bPGM; TIGR01990 585057005222 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 585057005223 motif II; other site 585057005224 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 585057005225 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 585057005226 Walker A/P-loop; other site 585057005227 ATP binding site [chemical binding]; other site 585057005228 Q-loop/lid; other site 585057005229 ABC transporter signature motif; other site 585057005230 Walker B; other site 585057005231 D-loop; other site 585057005232 H-loop/switch region; other site 585057005233 TOBE domain; Region: TOBE_2; pfam08402 585057005234 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 585057005235 Transcriptional regulators [Transcription]; Region: PurR; COG1609 585057005236 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057005237 DNA binding site [nucleotide binding] 585057005238 domain linker motif; other site 585057005239 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 585057005240 putative dimerization interface [polypeptide binding]; other site 585057005241 putative ligand binding site [chemical binding]; other site 585057005242 Predicted ATPase [General function prediction only]; Region: COG3106 585057005243 hypothetical protein; Provisional; Region: PRK05415 585057005244 Predicted membrane protein [Function unknown]; Region: COG3768 585057005245 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 585057005246 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 585057005247 putative aromatic amino acid binding site; other site 585057005248 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 585057005249 putative active site [active] 585057005250 heme pocket [chemical binding]; other site 585057005251 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 585057005252 Walker A motif; other site 585057005253 ATP binding site [chemical binding]; other site 585057005254 Walker B motif; other site 585057005255 arginine finger; other site 585057005256 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 585057005257 dimer interface [polypeptide binding]; other site 585057005258 catalytic triad [active] 585057005259 peroxidatic and resolving cysteines [active] 585057005260 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 585057005261 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 585057005262 active site 585057005263 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 585057005264 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 585057005265 putative active site [active] 585057005266 Zn binding site [ion binding]; other site 585057005267 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 585057005268 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 585057005269 peptide binding site [polypeptide binding]; other site 585057005270 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 585057005271 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057005272 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 585057005273 universal stress protein UspE; Provisional; Region: PRK11175 585057005274 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 585057005275 Ligand Binding Site [chemical binding]; other site 585057005276 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 585057005277 Ligand Binding Site [chemical binding]; other site 585057005278 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 585057005279 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 585057005280 ligand binding site [chemical binding]; other site 585057005281 flexible hinge region; other site 585057005282 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 585057005283 putative switch regulator; other site 585057005284 non-specific DNA interactions [nucleotide binding]; other site 585057005285 DNA binding site [nucleotide binding] 585057005286 sequence specific DNA binding site [nucleotide binding]; other site 585057005287 putative cAMP binding site [chemical binding]; other site 585057005288 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 585057005289 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 585057005290 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 585057005291 DNA binding site [nucleotide binding] 585057005292 active site 585057005293 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 585057005294 fragment of putative peptidase, aminobenzoyl-glutamate utilization protein (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057005295 fragment of putative peptidase, aminobenzoyl-glutamate utilization protein (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057005296 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 585057005297 amidohydrolase; Region: amidohydrolases; TIGR01891 585057005298 putative metal binding site [ion binding]; other site 585057005299 dimer interface [polypeptide binding]; other site 585057005300 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 585057005301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057005302 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 585057005303 putative substrate binding pocket [chemical binding]; other site 585057005304 putative dimerization interface [polypeptide binding]; other site 585057005305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 585057005306 Smr domain; Region: Smr; pfam01713 585057005307 PAS domain S-box; Region: sensory_box; TIGR00229 585057005308 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 585057005309 putative active site [active] 585057005310 heme pocket [chemical binding]; other site 585057005311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057005312 metal binding site [ion binding]; metal-binding site 585057005313 active site 585057005314 I-site; other site 585057005315 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 585057005316 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 585057005317 Cl binding site [ion binding]; other site 585057005318 oligomer interface [polypeptide binding]; other site 585057005319 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 585057005320 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 585057005321 ATP binding site [chemical binding]; other site 585057005322 Mg++ binding site [ion binding]; other site 585057005323 motif III; other site 585057005324 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 585057005325 nucleotide binding region [chemical binding]; other site 585057005326 ATP-binding site [chemical binding]; other site 585057005327 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 585057005328 putative RNA binding site [nucleotide binding]; other site 585057005329 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 585057005330 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 585057005331 Ligand Binding Site [chemical binding]; other site 585057005332 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 585057005333 Ligand Binding Site [chemical binding]; other site 585057005334 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 585057005335 trimer interface [polypeptide binding]; other site 585057005336 eyelet of channel; other site 585057005337 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 585057005338 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 585057005339 dimer interface [polypeptide binding]; other site 585057005340 PYR/PP interface [polypeptide binding]; other site 585057005341 TPP binding site [chemical binding]; other site 585057005342 substrate binding site [chemical binding]; other site 585057005343 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 585057005344 Domain of unknown function; Region: EKR; pfam10371 585057005345 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 585057005346 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 585057005347 TPP-binding site [chemical binding]; other site 585057005348 dimer interface [polypeptide binding]; other site 585057005349 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 585057005350 heat-inducible protein; Provisional; Region: PRK10449 585057005351 Transposase; Region: HTH_Tnp_1; cl17663 585057005352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005353 HTH-like domain; Region: HTH_21; pfam13276 585057005354 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057005355 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 585057005356 putative active site [active] 585057005357 putative NTP binding site [chemical binding]; other site 585057005358 putative nucleic acid binding site [nucleotide binding]; other site 585057005359 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057005360 Integrase core domain; Region: rve; pfam00665 585057005361 Integrase core domain; Region: rve_3; pfam13683 585057005362 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 585057005363 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 585057005364 putative ligand binding site [chemical binding]; other site 585057005365 putative NAD binding site [chemical binding]; other site 585057005366 catalytic site [active] 585057005367 hypothetical protein; Provisional; Region: PRK10695 585057005368 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 585057005369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 585057005370 Inter-alpha-trypsin inhibitor heavy chain C-terminus; Region: ITI_HC_C; pfam06668 585057005371 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 585057005372 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585057005373 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 585057005374 active site 585057005375 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057005376 catalytic tetrad [active] 585057005377 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 585057005378 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 585057005379 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 585057005380 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 585057005381 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 585057005382 Putative methyltransferase; Region: Methyltransf_20; pfam12147 585057005383 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 585057005384 S-adenosylmethionine binding site [chemical binding]; other site 585057005385 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 585057005386 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585057005387 active site 585057005388 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 585057005389 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 585057005390 active site 585057005391 catalytic residues [active] 585057005392 azoreductase; Reviewed; Region: PRK00170 585057005393 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 585057005394 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 585057005395 ATP binding site [chemical binding]; other site 585057005396 putative Mg++ binding site [ion binding]; other site 585057005397 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 585057005398 nucleotide binding region [chemical binding]; other site 585057005399 ATP-binding site [chemical binding]; other site 585057005400 Helicase associated domain (HA2); Region: HA2; pfam04408 585057005401 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 585057005402 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 585057005403 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 585057005404 putative active site [active] 585057005405 fragment of aldehyde dehydrogenase A, NAD-linked (partial);Evidence 7 : Gene remnant; Product type e : enzyme 585057005406 Transposase; Region: HTH_Tnp_1; cl17663 585057005407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005408 putative transposase OrfB; Reviewed; Region: PHA02517 585057005409 HTH-like domain; Region: HTH_21; pfam13276 585057005410 Integrase core domain; Region: rve; pfam00665 585057005411 Integrase core domain; Region: rve_3; pfam13683 585057005412 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 585057005413 active site 1 [active] 585057005414 dimer interface [polypeptide binding]; other site 585057005415 hexamer interface [polypeptide binding]; other site 585057005416 active site 2 [active] 585057005417 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 585057005418 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 585057005419 hypothetical protein; Provisional; Region: PRK10281 585057005420 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 585057005421 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 585057005422 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 585057005423 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 585057005424 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057005425 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 585057005426 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 585057005427 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 585057005428 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 585057005429 [4Fe-4S] binding site [ion binding]; other site 585057005430 molybdopterin cofactor binding site [chemical binding]; other site 585057005431 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 585057005432 molybdopterin cofactor binding site; other site 585057005433 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 585057005434 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 585057005435 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 585057005436 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 585057005437 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 585057005438 trimer interface [polypeptide binding]; other site 585057005439 eyelet of channel; other site 585057005440 aromatic amino acid exporter; Provisional; Region: PRK11689 585057005441 EamA-like transporter family; Region: EamA; pfam00892 585057005442 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 585057005443 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 585057005444 [4Fe-4S] binding site [ion binding]; other site 585057005445 molybdopterin cofactor binding site; other site 585057005446 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 585057005447 molybdopterin cofactor binding site; other site 585057005448 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 585057005449 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057005450 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 585057005451 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 585057005452 fragment of putative DNA-binding transcriptional regulator (partial);Evidence 7 : Gene remnant; Product type pr : putative regulator 585057005453 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 585057005454 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 585057005455 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 585057005456 NAD binding site [chemical binding]; other site 585057005457 substrate binding site [chemical binding]; other site 585057005458 catalytic Zn binding site [ion binding]; other site 585057005459 tetramer interface [polypeptide binding]; other site 585057005460 structural Zn binding site [ion binding]; other site 585057005461 malate dehydrogenase; Provisional; Region: PRK13529 585057005462 Malic enzyme, N-terminal domain; Region: malic; pfam00390 585057005463 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 585057005464 NAD(P) binding site [chemical binding]; other site 585057005465 similar to hypothetical protein; Evidence 4 : Homologs of previously reported genes of unknown function 585057005466 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 585057005467 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 585057005468 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 585057005469 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057005470 Walker A/P-loop; other site 585057005471 ATP binding site [chemical binding]; other site 585057005472 Q-loop/lid; other site 585057005473 ABC transporter signature motif; other site 585057005474 Walker B; other site 585057005475 D-loop; other site 585057005476 H-loop/switch region; other site 585057005477 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 585057005478 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 585057005479 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057005480 Walker A/P-loop; other site 585057005481 ATP binding site [chemical binding]; other site 585057005482 Q-loop/lid; other site 585057005483 ABC transporter signature motif; other site 585057005484 Walker B; other site 585057005485 D-loop; other site 585057005486 H-loop/switch region; other site 585057005487 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057005488 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 585057005489 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585057005490 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 585057005491 dimer interface [polypeptide binding]; other site 585057005492 conserved gate region; other site 585057005493 putative PBP binding loops; other site 585057005494 ABC-ATPase subunit interface; other site 585057005495 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 585057005496 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 585057005497 dimer interface [polypeptide binding]; other site 585057005498 conserved gate region; other site 585057005499 putative PBP binding loops; other site 585057005500 ABC-ATPase subunit interface; other site 585057005501 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 585057005502 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 585057005503 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 585057005504 fragment of cAMP phosphodiesterase, heme-regulated (part 2);Evidence 7 : Gene remnant; Product type e : enzyme 585057005505 fragment of cAMP phosphodiesterase, heme-regulated (part 1);Evidence 7 : Gene remnant; Product type e : enzyme 585057005506 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 585057005507 heme-binding site [chemical binding]; other site 585057005508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057005509 metal binding site [ion binding]; metal-binding site 585057005510 active site 585057005511 I-site; other site 585057005512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 585057005513 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 585057005514 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 585057005515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057005516 catalytic residue [active] 585057005517 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 585057005518 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 585057005519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585057005520 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 585057005521 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585057005522 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 585057005523 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 585057005524 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 585057005525 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 585057005526 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 585057005527 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 585057005528 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 585057005529 FeS/SAM binding site; other site 585057005530 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 585057005531 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 585057005532 Sulfatase; Region: Sulfatase; pfam00884 585057005533 transcriptional regulator YdeO; Provisional; Region: PRK09940 585057005534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057005535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057005536 putative oxidoreductase; Provisional; Region: PRK09939 585057005537 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 585057005538 putative molybdopterin cofactor binding site [chemical binding]; other site 585057005539 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 585057005540 putative molybdopterin cofactor binding site; other site 585057005541 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 585057005542 mannosyl binding site [chemical binding]; other site 585057005543 Fimbrial protein; Region: Fimbrial; cl01416 585057005544 putative transposase OrfB; Reviewed; Region: PHA02517 585057005545 HTH-like domain; Region: HTH_21; pfam13276 585057005546 Integrase core domain; Region: rve; pfam00665 585057005547 Integrase core domain; Region: rve_3; pfam13683 585057005548 Transposase; Region: HTH_Tnp_1; cl17663 585057005549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005550 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057005551 IS2 repressor TnpA; Reviewed; Region: PRK09413 585057005552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005553 fragment of IS2 insertion element transposase InsAB'; CP4-44 prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005554 fragment of Periplasmic chaperone precursor (partial);Evidence 7 : Gene remnant; Product type f : factor 585057005555 fragment of putative major fimbrial subunit FmlA (partial);Evidence 7 : Gene remnant; Product type ps : putative structure 585057005556 fragment of regulator with hipB (partial);Evidence 7 : Gene remnant; Product type r : regulator 585057005557 fragment of putative lipoprotein involved in contact growth inhibition (partial);Evidence 7 : Gene remnant; Product type lp : lipoprotein 585057005558 fragment of AI2 transporter ; membrane component of ABC superfamily (partial);Evidence 7 : Gene remnant; Product type t : transporter 585057005559 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 585057005560 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 585057005561 ligand binding site [chemical binding]; other site 585057005562 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 585057005563 putative active site; other site 585057005564 catalytic residue [active] 585057005565 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 585057005566 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 585057005567 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 585057005568 S-adenosylmethionine binding site [chemical binding]; other site 585057005569 Predicted membrane protein [Function unknown]; Region: COG3781 585057005570 altronate oxidoreductase; Provisional; Region: PRK03643 585057005571 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 585057005572 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 585057005573 MASE1; Region: MASE1; cl17823 585057005574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057005575 metal binding site [ion binding]; metal-binding site 585057005576 active site 585057005577 I-site; other site 585057005578 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 585057005579 glutaminase; Provisional; Region: PRK00971 585057005580 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 585057005581 NAD(P) binding site [chemical binding]; other site 585057005582 catalytic residues [active] 585057005583 fragment of putative DNA-binding transcriptional regulator (partial);Evidence 7 : Gene remnant; Product type pr : putative regulator 585057005584 tail protein; Provisional; Region: D; PHA02561 585057005585 Phage protein U [General function prediction only]; Region: COG3499 585057005586 Phage-related tail protein [Function unknown]; Region: COG5283 585057005587 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 585057005588 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 585057005589 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 585057005590 major tail tube protein; Provisional; Region: FII; PHA02600 585057005591 major tail sheath protein; Provisional; Region: FI; PHA02560 585057005592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 585057005593 Transposase; Region: HTH_Tnp_1; cl17663 585057005594 Integrase core domain; Region: rve; pfam00665 585057005595 fragment of putative variable tail fiber protein (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005596 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 585057005597 baseplate assembly protein; Provisional; Region: J; PHA02568 585057005598 baseplate wedge subunit; Provisional; Region: W; PHA02516 585057005599 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 585057005600 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 585057005601 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 585057005602 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 585057005603 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 585057005604 catalytic residues [active] 585057005605 Transmembrane protein 223; Region: TMEM223; pfam14640 585057005606 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 585057005607 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 585057005608 terminase endonuclease subunit; Provisional; Region: M; PHA02537 585057005609 capsid protein; Provisional; Region: N; PHA02538 585057005610 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 585057005611 fragment of Terminase, ATPase subunit (GpP) (part 1);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 585057005613 Transposase; Region: HTH_Tnp_1; cl17663 585057005614 Integrase core domain; Region: rve; pfam00665 585057005615 fragment of Terminase, ATPase subunit (GpP) (part 2);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005616 portal vertex protein; Provisional; Region: Q; PHA02536 585057005617 Transposase; Region: HTH_Tnp_1; cl17663 585057005618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005619 putative transposase OrfB; Reviewed; Region: PHA02517 585057005620 HTH-like domain; Region: HTH_21; pfam13276 585057005621 Integrase core domain; Region: rve; pfam00665 585057005622 Integrase core domain; Region: rve_3; pfam13683 585057005623 Putative phage integrase (partial);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 585057005624 fragment of putative DNA-binding transcriptional regulator (partial);Evidence 7 : Gene remnant; Product type pr : putative regulator 585057005625 putative arabinose transporter; Provisional; Region: PRK03545 585057005626 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057005627 putative substrate translocation pore; other site 585057005628 inner membrane protein; Provisional; Region: PRK10995 585057005629 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 585057005630 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057005631 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 585057005632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057005633 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057005634 MarB protein; Region: MarB; pfam13999 585057005635 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 585057005636 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 585057005637 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 585057005638 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 585057005639 trimer interface; other site 585057005640 maltoporin; Provisional; Region: lamB; PRK09360 585057005641 sugar binding site [chemical binding]; other site 585057005642 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 585057005643 active site 585057005644 methionine cluster; other site 585057005645 phosphorylation site [posttranslational modification] 585057005646 metal binding site [ion binding]; metal-binding site 585057005647 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 585057005648 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 585057005649 active site 585057005650 P-loop; other site 585057005651 phosphorylation site [posttranslational modification] 585057005652 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 585057005653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057005654 DNA-binding site [nucleotide binding]; DNA binding site 585057005655 UTRA domain; Region: UTRA; pfam07702 585057005656 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 585057005657 EamA-like transporter family; Region: EamA; pfam00892 585057005658 EamA-like transporter family; Region: EamA; pfam00892 585057005659 putative transporter; Provisional; Region: PRK10054 585057005660 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057005661 putative substrate translocation pore; other site 585057005662 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 585057005663 active site residue [active] 585057005664 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 585057005665 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 585057005666 conserved cys residue [active] 585057005667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057005668 diguanylate cyclase; Provisional; Region: PRK09894 585057005669 Chemoreceptor zinc-binding domain; Region: CZB; pfam13682 585057005670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057005671 metal binding site [ion binding]; metal-binding site 585057005672 active site 585057005673 I-site; other site 585057005674 hypothetical protein; Provisional; Region: PRK10053 585057005675 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 585057005676 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 585057005677 active site 585057005678 Zn binding site [ion binding]; other site 585057005679 malonic semialdehyde reductase; Provisional; Region: PRK10538 585057005680 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 585057005681 putative NAD(P) binding site [chemical binding]; other site 585057005682 homodimer interface [polypeptide binding]; other site 585057005683 homotetramer interface [polypeptide binding]; other site 585057005684 active site 585057005685 Transcriptional regulators [Transcription]; Region: GntR; COG1802 585057005686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057005687 DNA-binding site [nucleotide binding]; DNA binding site 585057005688 FCD domain; Region: FCD; pfam07729 585057005689 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 585057005690 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 585057005691 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 585057005692 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 585057005693 metabolite-proton symporter; Region: 2A0106; TIGR00883 585057005694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057005695 putative substrate translocation pore; other site 585057005696 fragment of putative site-specific recombinase; DNA invertase; Rac prophage (partial);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057005697 putative transposase OrfB; Reviewed; Region: PHA02517 585057005698 HTH-like domain; Region: HTH_21; pfam13276 585057005699 Integrase core domain; Region: rve; pfam00665 585057005700 Integrase core domain; Region: rve_3; pfam13683 585057005701 Transposase; Region: HTH_Tnp_1; cl17663 585057005702 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005703 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 585057005704 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 585057005705 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 585057005706 Phage-related protein, tail component [Function unknown]; Region: COG4733 585057005707 Putative phage tail protein; Region: Phage-tail_3; pfam13550 585057005708 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 585057005709 Interdomain contacts; other site 585057005710 Cytokine receptor motif; other site 585057005711 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 585057005712 Fibronectin type III protein; Region: DUF3672; pfam12421 585057005713 Phage-related protein, tail component [Function unknown]; Region: COG4723 585057005714 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 585057005715 MPN+ (JAMM) motif; other site 585057005716 Zinc-binding site [ion binding]; other site 585057005717 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057005718 NlpC/P60 family; Region: NLPC_P60; cl17555 585057005719 Phage-related protein [Function unknown]; Region: gp18; COG4672 585057005720 Phage-related protein [Function unknown]; Region: COG4718 585057005721 Phage-related minor tail protein [Function unknown]; Region: COG5281 585057005722 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 585057005723 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 585057005724 phage tail assembly protein T; Region: phage_lam_T; TIGR01715 585057005725 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 585057005726 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 585057005727 Phage tail protein; Region: Phage_tail_3; pfam08813 585057005728 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 585057005729 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 585057005730 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 585057005731 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 585057005732 DNA packaging protein FI; Region: Packaging_FI; pfam14000 585057005733 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 585057005734 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 585057005735 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 585057005736 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 585057005737 tandem repeat interface [polypeptide binding]; other site 585057005738 oligomer interface [polypeptide binding]; other site 585057005739 active site residues [active] 585057005740 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 585057005741 gpW; Region: gpW; pfam02831 585057005742 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 585057005743 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]; Region: COG4220 585057005744 Transposase; Region: HTH_Tnp_1; cl17663 585057005745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005746 HTH-like domain; Region: HTH_21; pfam13276 585057005747 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057005748 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 585057005749 putative active site [active] 585057005750 putative NTP binding site [chemical binding]; other site 585057005751 putative nucleic acid binding site [nucleotide binding]; other site 585057005752 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057005753 Integrase core domain; Region: rve; pfam00665 585057005754 Integrase core domain; Region: rve_3; pfam13683 585057005755 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057005756 alanine racemase; Reviewed; Region: dadX; PRK03646 585057005757 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 585057005758 active site 585057005759 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057005760 substrate binding site [chemical binding]; other site 585057005761 catalytic residues [active] 585057005762 dimer interface [polypeptide binding]; other site 585057005763 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 585057005764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057005765 SpoVR family protein; Provisional; Region: PRK11767 585057005766 fatty acid metabolism regulator; Provisional; Region: PRK04984 585057005767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057005768 DNA-binding site [nucleotide binding]; DNA binding site 585057005769 FadR C-terminal domain; Region: FadR_C; pfam07840 585057005770 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 585057005771 disulfide bond formation protein B; Provisional; Region: PRK01749 585057005772 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 585057005773 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 585057005774 active site 585057005775 DNA binding site [nucleotide binding] 585057005776 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 585057005777 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 585057005778 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 585057005779 Catalytic site [active] 585057005780 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 585057005781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057005782 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 585057005783 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 585057005784 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057005785 Haemolysin E (HlyE); Region: HlyE; cl11627 585057005786 hypothetical protein; Provisional; Region: PRK05170 585057005787 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 585057005788 hypothetical protein; Provisional; Region: PRK10691 585057005789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 585057005790 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 585057005791 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 585057005792 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 585057005793 septum formation inhibitor; Reviewed; Region: minC; PRK03511 585057005794 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 585057005795 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 585057005796 cell division inhibitor MinD; Provisional; Region: PRK10818 585057005797 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 585057005798 P-loop; other site 585057005799 ADP binding residues [chemical binding]; other site 585057005800 Switch I; other site 585057005801 Switch II; other site 585057005802 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 585057005803 Autotransporter beta-domain; Region: Autotransporter; smart00869 585057005804 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 585057005805 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 585057005806 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 585057005807 Autotransporter beta-domain; Region: Autotransporter; smart00869 585057005808 phage resistance protein; Provisional; Region: PRK10551 585057005809 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057005810 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 585057005811 Transposase; Region: HTH_Tnp_1; cl17663 585057005812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005813 putative transposase OrfB; Reviewed; Region: PHA02517 585057005814 HTH-like domain; Region: HTH_21; pfam13276 585057005815 Integrase core domain; Region: rve; pfam00665 585057005816 Integrase core domain; Region: rve_3; pfam13683 585057005817 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 585057005818 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 585057005819 Sensors of blue-light using FAD; Region: BLUF; smart01034 585057005820 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 585057005821 transcriptional regulator MirA; Provisional; Region: PRK15043 585057005822 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 585057005823 DNA binding residues [nucleotide binding] 585057005824 Phage envelope protein [General function prediction only]; Region: COG5562 585057005825 anti-adapter protein IraM; Provisional; Region: PRK09919 585057005826 fragment of isocitrate dehydrogenase, specific for NADP+; e14 prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005827 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 585057005828 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 585057005829 metal binding site [ion binding]; metal-binding site 585057005830 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 585057005831 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 585057005832 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 585057005833 ABC-ATPase subunit interface; other site 585057005834 dimer interface [polypeptide binding]; other site 585057005835 putative PBP binding regions; other site 585057005836 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 585057005837 ABC-ATPase subunit interface; other site 585057005838 dimer interface [polypeptide binding]; other site 585057005839 putative PBP binding regions; other site 585057005840 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 585057005841 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 585057005842 fragment of Putative Lom-like outer membrane protein of prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005843 Mor transcription activator family; Region: Mor; pfam08765 585057005844 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 585057005845 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 585057005846 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u2; cd11539 585057005847 metal binding site [ion binding]; metal-binding site 585057005848 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 585057005849 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 585057005850 AAA domain; Region: AAA_22; pfam13401 585057005851 Walker A motif; other site 585057005852 ATP binding site [chemical binding]; other site 585057005853 Walker B motif; other site 585057005854 arginine finger; other site 585057005855 Integrase core domain; Region: rve; pfam00665 585057005856 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 585057005857 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 585057005858 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 585057005859 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 585057005860 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 585057005861 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 585057005862 non-specific DNA binding site [nucleotide binding]; other site 585057005863 salt bridge; other site 585057005864 sequence-specific DNA binding site [nucleotide binding]; other site 585057005865 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 585057005866 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 585057005867 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 585057005868 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057005869 catalytic residue [active] 585057005870 phage lambda Rz-like lysis protein; Region: PHA00276 585057005871 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 585057005872 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 585057005873 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 585057005874 Phage Terminase; Region: Terminase_1; cl19862 585057005875 Protein of unknown function (DUF935); Region: DUF935; pfam06074 585057005876 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 585057005877 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 585057005878 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 585057005879 Gp37 protein; Region: Gp37; pfam09646 585057005880 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 585057005881 Phage tail tube protein FII; Region: Phage_tube; cl01390 585057005882 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 585057005883 Phage-related tail protein [Function unknown]; Region: COG5283 585057005884 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 585057005885 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 585057005886 Phage Tail Protein X; Region: Phage_tail_X; cl02088 585057005887 Phage protein D [General function prediction only]; Region: COG3500 585057005888 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 585057005889 Putative phage baseplate protein (fragment);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005890 Baseplate J-like protein; Region: Baseplate_J; cl01294 585057005891 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 585057005892 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005893 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005894 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005895 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005896 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005897 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005898 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005899 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057005900 Phage Tail Collar Domain; Region: Collar; pfam07484 585057005901 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 585057005902 putative side tail fiber protein homolog from lambdoid prophage (Fragment);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 585057005903 multiple promoter invertase; Provisional; Region: mpi; PRK13413 585057005904 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 585057005905 catalytic residues [active] 585057005906 catalytic nucleophile [active] 585057005907 Presynaptic Site I dimer interface [polypeptide binding]; other site 585057005908 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 585057005909 Synaptic Flat tetramer interface [polypeptide binding]; other site 585057005910 Synaptic Site I dimer interface [polypeptide binding]; other site 585057005911 DNA binding site [nucleotide binding] 585057005912 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 585057005913 DNA-binding interface [nucleotide binding]; DNA binding site 585057005914 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 585057005915 Terminase large subunit (Gp2) (partial);Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 585057005916 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 585057005917 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 585057005918 Bor protein homolog from lambdoid prophage DLP12 (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057005919 putative transposase OrfB; Reviewed; Region: PHA02517 585057005920 HTH-like domain; Region: HTH_21; pfam13276 585057005921 Integrase core domain; Region: rve; pfam00665 585057005922 Integrase core domain; Region: rve_3; pfam13683 585057005923 Transposase; Region: HTH_Tnp_1; cl17663 585057005924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005925 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 585057005926 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 585057005927 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 585057005928 phage recombination protein Bet; Region: bet_lambda; TIGR01913 585057005929 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 585057005930 Excisionase-like protein; Region: Exc; pfam07825 585057005931 isocitrate dehydrogenase; Reviewed; Region: PRK07006 585057005932 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 585057005933 putative transposase OrfB; Reviewed; Region: PHA02517 585057005934 HTH-like domain; Region: HTH_21; pfam13276 585057005935 Integrase core domain; Region: rve; pfam00665 585057005936 Integrase core domain; Region: rve_3; pfam13683 585057005937 Transposase; Region: HTH_Tnp_1; cl17663 585057005938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057005939 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 585057005940 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 585057005941 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 585057005942 probable active site [active] 585057005943 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 585057005944 nudix motif; other site 585057005945 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 585057005946 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 585057005947 Ligand Binding Site [chemical binding]; other site 585057005948 putative lysogenization regulator; Reviewed; Region: PRK00218 585057005949 adenylosuccinate lyase; Provisional; Region: PRK09285 585057005950 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 585057005951 tetramer interface [polypeptide binding]; other site 585057005952 active site 585057005953 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 585057005954 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 585057005955 active site 585057005956 phosphorylation site [posttranslational modification] 585057005957 intermolecular recognition site; other site 585057005958 dimerization interface [polypeptide binding]; other site 585057005959 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 585057005960 DNA binding site [nucleotide binding] 585057005961 sensor protein PhoQ; Provisional; Region: PRK10815 585057005962 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 585057005963 HAMP domain; Region: HAMP; pfam00672 585057005964 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 585057005965 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 585057005966 ATP binding site [chemical binding]; other site 585057005967 Mg2+ binding site [ion binding]; other site 585057005968 G-X-G motif; other site 585057005969 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 585057005970 Phage Terminase; Region: Terminase_1; cl19862 585057005971 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: COG3747 585057005972 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 585057005973 active site 585057005974 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 585057005975 oligomerization interface [polypeptide binding]; other site 585057005976 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 585057005977 Phage-related protein [Function unknown]; Region: COG4695 585057005978 Phage head maturation protease [General function prediction only]; Region: COG3740 585057005979 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 585057005980 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 585057005981 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 585057005982 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 585057005983 ssDNA binding site [nucleotide binding]; other site 585057005984 dimer interface [polypeptide binding]; other site 585057005985 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057005986 D5 N terminal like; Region: D5_N; smart00885 585057005987 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 585057005988 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 585057005989 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 585057005990 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 585057005991 integrase; Provisional; Region: PRK09692 585057005992 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 585057005993 active site 585057005994 Int/Topo IB signature motif; other site 585057005995 Uncharacterized conserved protein [Function unknown]; Region: COG2850 585057005996 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 585057005997 metal binding site [ion binding]; metal-binding site 585057005998 dimer interface [polypeptide binding]; other site 585057005999 Transposase; Region: HTH_Tnp_1; cl17663 585057006000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057006001 HTH-like domain; Region: HTH_21; pfam13276 585057006002 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057006003 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 585057006004 putative active site [active] 585057006005 putative NTP binding site [chemical binding]; other site 585057006006 putative nucleic acid binding site [nucleotide binding]; other site 585057006007 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057006008 Integrase core domain; Region: rve; pfam00665 585057006009 Integrase core domain; Region: rve_3; pfam13683 585057006010 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 585057006011 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 585057006012 Walker A/P-loop; other site 585057006013 ATP binding site [chemical binding]; other site 585057006014 Q-loop/lid; other site 585057006015 ABC transporter signature motif; other site 585057006016 Walker B; other site 585057006017 D-loop; other site 585057006018 H-loop/switch region; other site 585057006019 TOBE domain; Region: TOBE_2; pfam08402 585057006020 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 585057006021 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 585057006022 dimer interface [polypeptide binding]; other site 585057006023 conserved gate region; other site 585057006024 putative PBP binding loops; other site 585057006025 ABC-ATPase subunit interface; other site 585057006026 spermidine/putrescine ABC transporter membrane protein; Reviewed; Region: potC; PRK09500 585057006027 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 585057006028 dimer interface [polypeptide binding]; other site 585057006029 conserved gate region; other site 585057006030 putative PBP binding loops; other site 585057006031 ABC-ATPase subunit interface; other site 585057006032 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 585057006033 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 585057006034 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; cl01535 585057006035 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 585057006036 NAD+ binding site [chemical binding]; other site 585057006037 substrate binding site [chemical binding]; other site 585057006038 Zn binding site [ion binding]; other site 585057006039 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057006040 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057006041 nucleotide binding site [chemical binding]; other site 585057006042 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 585057006043 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 585057006044 FtsX-like permease family; Region: FtsX; pfam02687 585057006045 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 585057006046 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 585057006047 Walker A/P-loop; other site 585057006048 ATP binding site [chemical binding]; other site 585057006049 Q-loop/lid; other site 585057006050 ABC transporter signature motif; other site 585057006051 Walker B; other site 585057006052 D-loop; other site 585057006053 H-loop/switch region; other site 585057006054 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 585057006055 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 585057006056 FtsX-like permease family; Region: FtsX; pfam02687 585057006057 Predicted membrane protein [Function unknown]; Region: COG4763 585057006058 transcription-repair coupling factor; Provisional; Region: PRK10689 585057006059 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 585057006060 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 585057006061 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 585057006062 ATP binding site [chemical binding]; other site 585057006063 putative Mg++ binding site [ion binding]; other site 585057006064 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 585057006065 nucleotide binding region [chemical binding]; other site 585057006066 ATP-binding site [chemical binding]; other site 585057006067 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 585057006068 L,D-transpeptidase; Provisional; Region: PRK10260 585057006069 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057006070 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057006071 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057006072 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057006073 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057006074 hypothetical protein; Provisional; Region: PRK11280 585057006075 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 585057006076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057006077 hypothetical protein; Provisional; Region: PRK04940 585057006078 beta-hexosaminidase; Provisional; Region: PRK05337 585057006079 Phosphotransferase enzyme family; Region: APH; pfam01636 585057006080 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 585057006081 active site 585057006082 substrate binding site [chemical binding]; other site 585057006083 ATP binding site [chemical binding]; other site 585057006084 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 585057006085 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 585057006086 putative dimer interface [polypeptide binding]; other site 585057006087 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 585057006088 nucleotide binding site/active site [active] 585057006089 HIT family signature motif; other site 585057006090 catalytic residue [active] 585057006091 fragment of ferric-rhodotorulic acid outer membrane transporter (part 1);Evidence 7 : Gene remnant; Product type t : transporter 585057006092 fragment of ferric-rhodotorulic acid outer membrane transporter (part 2);Evidence 7 : Gene remnant; Product type t : transporter 585057006093 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 585057006094 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 585057006095 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 585057006096 active site turn [active] 585057006097 phosphorylation site [posttranslational modification] 585057006098 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 585057006099 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 585057006100 active site 585057006101 DNA polymerase III subunit delta'; Validated; Region: PRK07993 585057006102 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 585057006103 thymidylate kinase; Validated; Region: tmk; PRK00698 585057006104 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 585057006105 TMP-binding site; other site 585057006106 ATP-binding site [chemical binding]; other site 585057006107 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 585057006108 dimerization interface [polypeptide binding]; other site 585057006109 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 585057006110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057006111 catalytic residue [active] 585057006112 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 585057006113 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 585057006114 dimer interface [polypeptide binding]; other site 585057006115 active site 585057006116 acyl carrier protein; Provisional; Region: acpP; PRK00982 585057006117 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 585057006118 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 585057006119 NAD(P) binding site [chemical binding]; other site 585057006120 homotetramer interface [polypeptide binding]; other site 585057006121 homodimer interface [polypeptide binding]; other site 585057006122 active site 585057006123 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 585057006124 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 585057006125 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 585057006126 dimer interface [polypeptide binding]; other site 585057006127 active site 585057006128 CoA binding pocket [chemical binding]; other site 585057006129 putative phosphate acyltransferase; Provisional; Region: PRK05331 585057006130 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 585057006131 hypothetical protein; Provisional; Region: PRK11193 585057006132 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 585057006133 active site 585057006134 dimer interface [polypeptide binding]; other site 585057006135 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 585057006136 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 585057006137 RNA binding surface [nucleotide binding]; other site 585057006138 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585057006139 active site 585057006140 ribonuclease E; Reviewed; Region: rne; PRK10811 585057006141 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 585057006142 homodimer interface [polypeptide binding]; other site 585057006143 oligonucleotide binding site [chemical binding]; other site 585057006144 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 585057006145 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 585057006146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 585057006147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057006148 Coenzyme A binding pocket [chemical binding]; other site 585057006149 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 585057006150 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 585057006151 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 585057006152 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585057006153 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585057006154 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 585057006155 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 585057006156 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 585057006157 fragment of flagellar basal body P-ring protein (part 2);Evidence 7 : Gene remnant; Product type s : structure 585057006158 fragment of flagellar basal body P-ring protein (part 1);Evidence 7 : Gene remnant; Product type s : structure 585057006159 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 585057006160 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 585057006161 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585057006162 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585057006163 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 585057006164 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585057006165 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 585057006166 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 585057006167 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585057006168 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 585057006169 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585057006170 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 585057006171 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 585057006172 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 585057006173 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 585057006174 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 585057006175 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 585057006176 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 585057006177 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 585057006178 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 585057006179 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 585057006180 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 585057006181 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 585057006182 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 585057006183 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 585057006184 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 585057006185 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057006186 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585057006187 hypothetical protein; Provisional; Region: PRK11239 585057006188 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 585057006189 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 585057006190 multidrug resistance protein MdtH; Provisional; Region: PRK11646 585057006191 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057006192 putative substrate translocation pore; other site 585057006193 glutaredoxin 2; Provisional; Region: PRK10387 585057006194 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 585057006195 C-terminal domain interface [polypeptide binding]; other site 585057006196 GSH binding site (G-site) [chemical binding]; other site 585057006197 catalytic residues [active] 585057006198 putative dimer interface [polypeptide binding]; other site 585057006199 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 585057006200 N-terminal domain interface [polypeptide binding]; other site 585057006201 lipoprotein; Provisional; Region: PRK10598 585057006202 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 585057006203 active site 585057006204 substrate binding pocket [chemical binding]; other site 585057006205 dimer interface [polypeptide binding]; other site 585057006206 DNA damage-inducible protein I; Provisional; Region: PRK10597 585057006207 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 585057006208 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 585057006209 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 585057006210 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 585057006211 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 585057006212 hypothetical protein; Provisional; Region: PRK03757 585057006213 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 585057006214 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 585057006215 active site residue [active] 585057006216 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 585057006217 putative acyl-acceptor binding pocket; other site 585057006218 drug efflux system protein MdtG; Provisional; Region: PRK09874 585057006219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057006220 putative substrate translocation pore; other site 585057006221 secY/secA suppressor protein; Provisional; Region: PRK11467 585057006222 lipoprotein; Provisional; Region: PRK10175 585057006223 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 585057006224 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 585057006225 Ligand binding site; other site 585057006226 DXD motif; other site 585057006227 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 585057006228 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 585057006229 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 585057006230 PLD-like domain; Region: PLDc_2; pfam13091 585057006231 putative active site [active] 585057006232 catalytic site [active] 585057006233 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 585057006234 PLD-like domain; Region: PLDc_2; pfam13091 585057006235 putative active site [active] 585057006236 catalytic site [active] 585057006237 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 585057006238 putative ADP-ribose binding site [chemical binding]; other site 585057006239 putative active site [active] 585057006240 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057006241 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; pfam10610 585057006242 major curlin subunit; Provisional; Region: csgA; PRK10051 585057006243 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 585057006244 Curlin associated repeat; Region: Curlin_rpt; pfam07012 585057006245 Curlin associated repeat; Region: Curlin_rpt; pfam07012 585057006246 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 585057006247 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 585057006248 DNA binding residues [nucleotide binding] 585057006249 dimerization interface [polypeptide binding]; other site 585057006250 curli assembly protein CsgE; Provisional; Region: PRK10386 585057006251 curli assembly protein CsgF; Provisional; Region: PRK10050 585057006252 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 585057006253 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 585057006254 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 585057006255 putative hydrolase; Validated; Region: PRK09248 585057006256 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 585057006257 active site 585057006258 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 585057006259 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 585057006260 putative ligand binding site [chemical binding]; other site 585057006261 NAD binding site [chemical binding]; other site 585057006262 dimerization interface [polypeptide binding]; other site 585057006263 catalytic site [active] 585057006264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057006265 metal binding site [ion binding]; metal-binding site 585057006266 active site 585057006267 I-site; other site 585057006268 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 585057006269 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 585057006270 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 585057006271 putative active site [active] 585057006272 putative metal binding site [ion binding]; other site 585057006273 Hypothetical glycosyl hydrolase family 13; Region: GHL13; pfam14883 585057006274 N-glycosyltransferase; Provisional; Region: PRK11204 585057006275 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 585057006276 DXD motif; other site 585057006277 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 585057006278 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 585057006279 hypothetical protein; Provisional; Region: PRK10536 585057006280 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 585057006281 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 585057006282 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 585057006283 Imelysin; Region: Peptidase_M75; pfam09375 585057006284 FTR1 family protein; Region: TIGR00145 585057006285 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 585057006286 Na binding site [ion binding]; other site 585057006287 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 585057006288 Predicted transcriptional regulator [Transcription]; Region: COG3905 585057006289 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 585057006290 Proline dehydrogenase; Region: Pro_dh; pfam01619 585057006291 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 585057006292 Glutamate binding site [chemical binding]; other site 585057006293 NAD binding site [chemical binding]; other site 585057006294 catalytic residues [active] 585057006295 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 585057006296 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 585057006297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057006298 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 585057006299 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 585057006300 active site 585057006301 dimer interface [polypeptide binding]; other site 585057006302 non-prolyl cis peptide bond; other site 585057006303 insertion regions; other site 585057006304 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 585057006305 catalytic triad [active] 585057006306 conserved cis-peptide bond; other site 585057006307 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 585057006308 homotrimer interaction site [polypeptide binding]; other site 585057006309 putative active site [active] 585057006310 pyrimidine utilization protein D; Region: RutD; TIGR03611 585057006311 Putative lysophospholipase; Region: Hydrolase_4; cl19140 585057006312 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 585057006313 putative FMN binding site [chemical binding]; other site 585057006314 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 585057006315 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 585057006316 uracil-xanthine permease; Region: ncs2; TIGR00801 585057006317 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 585057006318 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 585057006319 hypothetical protein; Provisional; Region: PRK10174 585057006320 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 585057006321 catalytic core [active] 585057006322 hypothetical protein; Provisional; Region: PRK09784 585057006323 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 585057006324 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 585057006325 HSP70 interaction site [polypeptide binding]; other site 585057006326 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 585057006327 substrate binding site [polypeptide binding]; other site 585057006328 dimer interface [polypeptide binding]; other site 585057006329 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 585057006330 chaperone protein TorD; Validated; Region: torD; PRK04976 585057006331 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 585057006332 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 585057006333 molybdopterin cofactor binding site [chemical binding]; other site 585057006334 substrate binding site [chemical binding]; other site 585057006335 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 585057006336 molybdopterin cofactor binding site; other site 585057006337 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 585057006338 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 585057006339 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 585057006340 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 585057006341 active site 585057006342 phosphorylation site [posttranslational modification] 585057006343 intermolecular recognition site; other site 585057006344 dimerization interface [polypeptide binding]; other site 585057006345 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 585057006346 DNA binding site [nucleotide binding] 585057006347 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 585057006348 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 585057006349 putative ligand binding site [chemical binding]; other site 585057006350 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 585057006351 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 585057006352 dimerization interface [polypeptide binding]; other site 585057006353 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 585057006354 dimer interface [polypeptide binding]; other site 585057006355 phosphorylation site [posttranslational modification] 585057006356 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 585057006357 ATP binding site [chemical binding]; other site 585057006358 Mg2+ binding site [ion binding]; other site 585057006359 G-X-G motif; other site 585057006360 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 585057006361 active site 585057006362 phosphorylation site [posttranslational modification] 585057006363 intermolecular recognition site; other site 585057006364 dimerization interface [polypeptide binding]; other site 585057006365 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 585057006366 putative binding surface; other site 585057006367 active site 585057006368 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 585057006369 4Fe-4S binding domain; Region: Fer4_5; pfam12801 585057006370 4Fe-4S binding domain; Region: Fer4_5; pfam12801 585057006371 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 585057006372 GnsA/GnsB family; Region: GnsAB; pfam08178 585057006373 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 585057006374 DNA-binding site [nucleotide binding]; DNA binding site 585057006375 RNA-binding motif; other site 585057006376 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 585057006377 DNA-binding site [nucleotide binding]; DNA binding site 585057006378 RNA-binding motif; other site 585057006379 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 585057006380 catalytic core [active] 585057006381 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 585057006382 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 585057006383 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 585057006384 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 585057006385 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 585057006386 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 585057006387 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 585057006388 putative substrate-binding site; other site 585057006389 nickel binding site [ion binding]; other site 585057006390 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 585057006391 hydrogenase 1 large subunit; Provisional; Region: PRK10170 585057006392 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 585057006393 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 585057006394 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 585057006395 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 585057006396 YccA-like proteins; Region: YccA_like; cd10433 585057006397 sulfur transfer protein TusE; Provisional; Region: PRK11508 585057006398 acylphosphatase; Provisional; Region: PRK14439 585057006399 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 585057006400 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 585057006401 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 585057006402 putative RNA binding site [nucleotide binding]; other site 585057006403 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 585057006404 S-adenosylmethionine binding site [chemical binding]; other site 585057006405 heat shock protein HspQ; Provisional; Region: PRK14129 585057006406 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 585057006407 hypothetical protein; Provisional; Region: PRK03641 585057006408 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 585057006409 active site 585057006410 dimer interfaces [polypeptide binding]; other site 585057006411 catalytic residues [active] 585057006412 DNA helicase IV; Provisional; Region: helD; PRK11054 585057006413 DNA helicase IV / RNA helicase N terminal; Region: Helicase_IV_N; pfam12462 585057006414 Part of AAA domain; Region: AAA_19; pfam13245 585057006415 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 585057006416 Predicted membrane protein [Function unknown]; Region: COG3304 585057006417 Domain of unknown function (DUF307); Region: DUF307; pfam03733 585057006418 Domain of unknown function (DUF307); Region: DUF307; pfam03733 585057006419 TIGR01666 family membrane protein; Region: YCCS 585057006420 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 585057006421 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 585057006422 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 585057006423 TfoX C-terminal domain; Region: TfoX_C; pfam04994 585057006424 cell division inhibitor SulA; Region: sula; TIGR00623 585057006425 outer membrane protein A; Reviewed; Region: PRK10808 585057006426 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 585057006427 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057006428 ligand binding site [chemical binding]; other site 585057006429 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 585057006430 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 585057006431 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 585057006432 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 585057006433 active site 1 [active] 585057006434 dimer interface [polypeptide binding]; other site 585057006435 active site 2 [active] 585057006436 ribosome modulation factor; Provisional; Region: PRK14563 585057006437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 585057006438 paraquat-inducible protein B; Provisional; Region: PRK10807 585057006439 mce related protein; Region: MCE; pfam02470 585057006440 mce related protein; Region: MCE; pfam02470 585057006441 mce related protein; Region: MCE; pfam02470 585057006442 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 585057006443 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 585057006444 Paraquat-inducible protein A; Region: PqiA; pfam04403 585057006445 Paraquat-inducible protein A; Region: PqiA; pfam04403 585057006446 ABC transporter ATPase component; Reviewed; Region: PRK11147 585057006447 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057006448 ABC transporter; Region: ABC_tran_2; pfam12848 585057006449 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057006450 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 585057006451 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 585057006452 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 585057006453 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 585057006454 S-adenosylmethionine binding site [chemical binding]; other site 585057006455 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 585057006456 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 585057006457 MOSC domain; Region: MOSC; pfam03473 585057006458 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 585057006459 catalytic loop [active] 585057006460 iron binding site [ion binding]; other site 585057006461 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 585057006462 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 585057006463 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 585057006464 quinone interaction residues [chemical binding]; other site 585057006465 active site 585057006466 catalytic residues [active] 585057006467 FMN binding site [chemical binding]; other site 585057006468 substrate binding site [chemical binding]; other site 585057006469 putativi pili assembly chaperone; Provisional; Region: PRK11385 585057006470 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057006471 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057006472 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057006473 Fimbrial protein; Region: Fimbrial; cl01416 585057006474 Fimbrial protein; Region: Fimbrial; cl01416 585057006475 outer membrane usher protein; Provisional; Region: PRK15193 585057006476 PapC N-terminal domain; Region: PapC_N; pfam13954 585057006477 Outer membrane usher protein; Region: Usher; pfam00577 585057006478 PapC C-terminal domain; Region: PapC_C; pfam13953 585057006479 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 585057006480 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057006481 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057006482 Fimbrial protein; Region: Fimbrial; cl01416 585057006483 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 585057006484 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 585057006485 substrate binding pocket [chemical binding]; other site 585057006486 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 585057006487 membrane-bound complex binding site; other site 585057006488 hinge residues; other site 585057006489 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 585057006490 active site 585057006491 dimer interface [polypeptide binding]; other site 585057006492 non-prolyl cis peptide bond; other site 585057006493 insertion regions; other site 585057006494 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 585057006495 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 585057006496 dimer interface [polypeptide binding]; other site 585057006497 conserved gate region; other site 585057006498 putative PBP binding loops; other site 585057006499 ABC-ATPase subunit interface; other site 585057006500 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 585057006501 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 585057006502 Walker A/P-loop; other site 585057006503 ATP binding site [chemical binding]; other site 585057006504 Q-loop/lid; other site 585057006505 ABC transporter signature motif; other site 585057006506 Walker B; other site 585057006507 D-loop; other site 585057006508 H-loop/switch region; other site 585057006509 aminopeptidase N; Provisional; Region: pepN; PRK14015 585057006510 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 585057006511 active site 585057006512 Zn binding site [ion binding]; other site 585057006513 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 585057006514 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 585057006515 active site 585057006516 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 585057006517 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 585057006518 putative dimer interface [polypeptide binding]; other site 585057006519 putative anticodon binding site; other site 585057006520 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 585057006521 homodimer interface [polypeptide binding]; other site 585057006522 motif 1; other site 585057006523 motif 2; other site 585057006524 active site 585057006525 motif 3; other site 585057006526 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 585057006527 trimer interface [polypeptide binding]; other site 585057006528 eyelet of channel; other site 585057006529 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 585057006530 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 585057006531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057006532 homodimer interface [polypeptide binding]; other site 585057006533 catalytic residue [active] 585057006534 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 585057006535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 585057006536 Peptidase M15; Region: Peptidase_M15_3; cl01194 585057006537 murein L,D-transpeptidase; Provisional; Region: PRK10594 585057006538 K+ potassium transporter; Region: K_trans; cl15781 585057006539 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 585057006540 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 585057006541 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 585057006542 MukB N-terminal; Region: MukB; pfam04310 585057006543 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 585057006544 condesin subunit E; Provisional; Region: PRK05256 585057006545 condesin subunit F; Provisional; Region: PRK05260 585057006546 Methyltransferase domain; Region: Methyltransf_31; pfam13847 585057006547 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 585057006548 S-adenosylmethionine binding site [chemical binding]; other site 585057006549 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 585057006550 putative active site [active] 585057006551 hypothetical protein; Provisional; Region: PRK10593 585057006552 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 585057006553 Ligand binding site; other site 585057006554 oligomer interface; other site 585057006555 hypothetical protein; Provisional; Region: PRK11827 585057006556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 585057006557 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 585057006558 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 585057006559 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057006560 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 585057006561 Walker A/P-loop; other site 585057006562 ATP binding site [chemical binding]; other site 585057006563 Q-loop/lid; other site 585057006564 ABC transporter signature motif; other site 585057006565 Walker B; other site 585057006566 D-loop; other site 585057006567 H-loop/switch region; other site 585057006568 ComEC family competence protein; Provisional; Region: PRK11539 585057006569 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 585057006570 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 585057006571 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 585057006572 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 585057006573 dimer interface [polypeptide binding]; other site 585057006574 DNA binding site [nucleotide binding] 585057006575 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 585057006576 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 585057006577 RNA binding site [nucleotide binding]; other site 585057006578 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 585057006579 RNA binding site [nucleotide binding]; other site 585057006580 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 585057006581 RNA binding site [nucleotide binding]; other site 585057006582 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 585057006583 RNA binding site [nucleotide binding]; other site 585057006584 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 585057006585 RNA binding site [nucleotide binding]; other site 585057006586 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 585057006587 RNA binding site [nucleotide binding]; other site 585057006588 cytidylate kinase; Provisional; Region: cmk; PRK00023 585057006589 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 585057006590 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 585057006591 active site 585057006592 CMP-binding site; other site 585057006593 The sites determining sugar specificity; other site 585057006594 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 585057006595 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057006596 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057006597 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057006598 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 585057006599 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 585057006600 hinge; other site 585057006601 active site 585057006602 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 585057006603 homodimer interface [polypeptide binding]; other site 585057006604 substrate-cofactor binding pocket; other site 585057006605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057006606 catalytic residue [active] 585057006607 Predicted membrane protein [Function unknown]; Region: COG2323 585057006608 uncharacterized domain; Region: TIGR00702 585057006609 formate transporter; Provisional; Region: PRK10805 585057006610 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 585057006611 Pyruvate formate lyase 1; Region: PFL1; cd01678 585057006612 coenzyme A binding site [chemical binding]; other site 585057006613 active site 585057006614 catalytic residues [active] 585057006615 glycine loop; other site 585057006616 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 585057006617 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 585057006618 FeS/SAM binding site; other site 585057006619 hypothetical protein; Provisional; Region: PRK09739 585057006620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057006621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057006622 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 585057006623 putative effector binding pocket; other site 585057006624 putative dimerization interface [polypeptide binding]; other site 585057006625 Amino acid permease; Region: AA_permease_2; pfam13520 585057006626 putative MFS family transporter protein; Provisional; Region: PRK03633 585057006627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057006628 putative substrate translocation pore; other site 585057006629 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 585057006630 catalytic triad [active] 585057006631 dimer interface [polypeptide binding]; other site 585057006632 conserved cis-peptide bond; other site 585057006633 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 585057006634 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 585057006635 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057006636 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 585057006637 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 585057006638 putative [Fe4-S4] binding site [ion binding]; other site 585057006639 putative molybdopterin cofactor binding site [chemical binding]; other site 585057006640 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 585057006641 putative molybdopterin cofactor binding site; other site 585057006642 seryl-tRNA synthetase; Provisional; Region: PRK05431 585057006643 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 585057006644 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 585057006645 dimer interface [polypeptide binding]; other site 585057006646 active site 585057006647 motif 1; other site 585057006648 motif 2; other site 585057006649 motif 3; other site 585057006650 recombination factor protein RarA; Reviewed; Region: PRK13342 585057006651 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 585057006652 Walker A motif; other site 585057006653 ATP binding site [chemical binding]; other site 585057006654 Walker B motif; other site 585057006655 arginine finger; other site 585057006656 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 585057006657 periplasmic chaperone LolA; Region: lolA; TIGR00547 585057006658 HTH-like domain; Region: HTH_21; pfam13276 585057006659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057006660 Integrase core domain; Region: rve; pfam00665 585057006661 Integrase core domain; Region: rve_2; pfam13333 585057006662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057006663 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057006664 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057006665 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057006666 DNA translocase FtsK; Provisional; Region: PRK10263 585057006667 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 585057006668 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 585057006669 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 585057006670 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 585057006671 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 585057006672 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 585057006673 putative DNA binding site [nucleotide binding]; other site 585057006674 putative Zn2+ binding site [ion binding]; other site 585057006675 AsnC family; Region: AsnC_trans_reg; pfam01037 585057006676 thioredoxin reductase; Provisional; Region: PRK10262 585057006677 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057006678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057006679 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 585057006680 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057006681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057006682 Walker A/P-loop; other site 585057006683 ATP binding site [chemical binding]; other site 585057006684 Q-loop/lid; other site 585057006685 ABC transporter signature motif; other site 585057006686 Walker B; other site 585057006687 D-loop; other site 585057006688 H-loop/switch region; other site 585057006689 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 585057006690 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 585057006691 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 585057006692 Walker A/P-loop; other site 585057006693 ATP binding site [chemical binding]; other site 585057006694 Q-loop/lid; other site 585057006695 ABC transporter signature motif; other site 585057006696 Walker B; other site 585057006697 D-loop; other site 585057006698 H-loop/switch region; other site 585057006699 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 585057006700 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 585057006701 rRNA binding site [nucleotide binding]; other site 585057006702 predicted 30S ribosome binding site; other site 585057006703 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 585057006704 Clp amino terminal domain; Region: Clp_N; pfam02861 585057006705 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 585057006706 Walker A motif; other site 585057006707 ATP binding site [chemical binding]; other site 585057006708 Walker B motif; other site 585057006709 arginine finger; other site 585057006710 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 585057006711 Walker A motif; other site 585057006712 ATP binding site [chemical binding]; other site 585057006713 Walker B motif; other site 585057006714 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 585057006715 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 585057006716 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 585057006717 DNA-binding site [nucleotide binding]; DNA binding site 585057006718 RNA-binding motif; other site 585057006719 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 585057006720 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 585057006721 Walker A/P-loop; other site 585057006722 ATP binding site [chemical binding]; other site 585057006723 Q-loop/lid; other site 585057006724 ABC transporter signature motif; other site 585057006725 Walker B; other site 585057006726 D-loop; other site 585057006727 H-loop/switch region; other site 585057006728 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 585057006729 FtsX-like permease family; Region: FtsX; pfam02687 585057006730 macrolide transporter subunit MacA; Provisional; Region: PRK11578 585057006731 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057006732 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057006733 Protein of unknown function (DUF535); Region: DUF535; pfam04393 585057006734 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 585057006735 AAA domain; Region: AAA_21; pfam13304 585057006736 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 585057006737 putative active site [active] 585057006738 putative metal-binding site [ion binding]; other site 585057006739 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 585057006740 amphipathic channel; other site 585057006741 Asn-Pro-Ala signature motifs; other site 585057006742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 585057006743 Transposase; Region: DEDD_Tnp_IS110; pfam01548 585057006744 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 585057006745 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 585057006746 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 585057006747 FMN binding site [chemical binding]; other site 585057006748 active site 585057006749 catalytic residues [active] 585057006750 substrate binding site [chemical binding]; other site 585057006751 hypothetical protein; Provisional; Region: PRK01821 585057006752 hypothetical protein; Provisional; Region: PRK10711 585057006753 cytidine deaminase; Provisional; Region: PRK09027 585057006754 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 585057006755 active site 585057006756 catalytic motif [active] 585057006757 Zn binding site [ion binding]; other site 585057006758 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 585057006759 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 585057006760 active site 585057006761 catalytic motif [active] 585057006762 Zn binding site [ion binding]; other site 585057006763 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 585057006764 putative active site [active] 585057006765 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 585057006766 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 585057006767 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 585057006768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 585057006769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057006770 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 585057006771 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 585057006772 homodimer interface [polypeptide binding]; other site 585057006773 active site 585057006774 FMN binding site [chemical binding]; other site 585057006775 substrate binding site [chemical binding]; other site 585057006776 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 585057006777 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 585057006778 TM-ABC transporter signature motif; other site 585057006779 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057006780 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 585057006781 Walker A/P-loop; other site 585057006782 ATP binding site [chemical binding]; other site 585057006783 Q-loop/lid; other site 585057006784 ABC transporter signature motif; other site 585057006785 Walker B; other site 585057006786 D-loop; other site 585057006787 H-loop/switch region; other site 585057006788 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057006789 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 585057006790 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 585057006791 ligand binding site [chemical binding]; other site 585057006792 calcium binding site [ion binding]; other site 585057006793 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 585057006794 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057006795 DNA binding site [nucleotide binding] 585057006796 domain linker motif; other site 585057006797 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 585057006798 dimerization interface (closed form) [polypeptide binding]; other site 585057006799 ligand binding site [chemical binding]; other site 585057006800 Predicted membrane protein [Function unknown]; Region: COG2311 585057006801 hypothetical protein; Provisional; Region: PRK10835 585057006802 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 585057006803 homodecamer interface [polypeptide binding]; other site 585057006804 active site 585057006805 putative catalytic site residues [active] 585057006806 zinc binding site [ion binding]; other site 585057006807 GTP-CH-I/GFRP interaction surface; other site 585057006808 Predicted esterase [General function prediction only]; Region: COG0627 585057006809 S-formylglutathione hydrolase; Region: PLN02442 585057006810 fragment of ferric iron-catecholate outer membrane transporter (part 2);Evidence 7 : Gene remnant; Product type m : membrane component 585057006811 fragment of ferric iron-catecholate outer membrane transporter (part 1);Evidence 7 : Gene remnant; Product type m : membrane component 585057006812 lysine transporter; Provisional; Region: PRK10836 585057006813 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057006814 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 585057006815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057006816 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 585057006817 putative dimerization interface [polypeptide binding]; other site 585057006818 conserved hypothetical integral membrane protein; Region: TIGR00698 585057006819 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 585057006820 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 585057006821 AP (apurinic/apyrimidinic) site pocket; other site 585057006822 DNA interaction; other site 585057006823 Metal-binding active site; metal-binding site 585057006824 putative kinase; Provisional; Region: PRK09954 585057006825 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 585057006826 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 585057006827 substrate binding site [chemical binding]; other site 585057006828 ATP binding site [chemical binding]; other site 585057006829 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 585057006830 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 585057006831 Nucleoside recognition; Region: Gate; pfam07670 585057006832 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 585057006833 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 585057006834 active site 585057006835 tetramer interface [polypeptide binding]; other site 585057006836 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 585057006837 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 585057006838 ligand binding site [chemical binding]; other site 585057006839 flexible hinge region; other site 585057006840 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 585057006841 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 585057006842 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 585057006843 Nucleoside recognition; Region: Gate; pfam07670 585057006844 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 585057006845 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 585057006846 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 585057006847 substrate binding site [chemical binding]; other site 585057006848 ATP binding site [chemical binding]; other site 585057006849 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 585057006850 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 585057006851 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 585057006852 active site 585057006853 P-loop; other site 585057006854 phosphorylation site [posttranslational modification] 585057006855 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 585057006856 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 585057006857 putative substrate binding site [chemical binding]; other site 585057006858 putative ATP binding site [chemical binding]; other site 585057006859 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 585057006860 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 585057006861 active site 585057006862 phosphorylation site [posttranslational modification] 585057006863 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 585057006864 dimerization domain swap beta strand [polypeptide binding]; other site 585057006865 regulatory protein interface [polypeptide binding]; other site 585057006866 active site 585057006867 regulatory phosphorylation site [posttranslational modification]; other site 585057006868 sugar efflux transporter B; Provisional; Region: PRK15011 585057006869 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057006870 putative substrate translocation pore; other site 585057006871 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 585057006872 elongation factor P; Provisional; Region: PRK04542 585057006873 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 585057006874 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 585057006875 RNA binding site [nucleotide binding]; other site 585057006876 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 585057006877 RNA binding site [nucleotide binding]; other site 585057006878 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 585057006879 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 585057006880 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 585057006881 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 585057006882 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 585057006883 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 585057006884 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 585057006885 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 585057006886 active site 585057006887 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 585057006888 NlpC/P60 family; Region: NLPC_P60; pfam00877 585057006889 phage resistance protein; Provisional; Region: PRK10551 585057006890 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057006891 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 585057006892 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 585057006893 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 585057006894 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 585057006895 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 585057006896 dimer interface [polypeptide binding]; other site 585057006897 conserved gate region; other site 585057006898 putative PBP binding loops; other site 585057006899 ABC-ATPase subunit interface; other site 585057006900 microcin C ABC transporter permease; Provisional; Region: PRK15021 585057006901 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 585057006902 dimer interface [polypeptide binding]; other site 585057006903 conserved gate region; other site 585057006904 putative PBP binding loops; other site 585057006905 ABC-ATPase subunit interface; other site 585057006906 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 585057006907 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057006908 Walker A/P-loop; other site 585057006909 ATP binding site [chemical binding]; other site 585057006910 Q-loop/lid; other site 585057006911 ABC transporter signature motif; other site 585057006912 Walker B; other site 585057006913 D-loop; other site 585057006914 H-loop/switch region; other site 585057006915 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057006916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057006917 Walker A/P-loop; other site 585057006918 ATP binding site [chemical binding]; other site 585057006919 Q-loop/lid; other site 585057006920 ABC transporter signature motif; other site 585057006921 Walker B; other site 585057006922 D-loop; other site 585057006923 H-loop/switch region; other site 585057006924 hypothetical protein; Provisional; Region: PRK11835 585057006925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057006926 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 585057006927 putative substrate translocation pore; other site 585057006928 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 585057006929 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 585057006930 RNA binding surface [nucleotide binding]; other site 585057006931 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 585057006932 active site 585057006933 uracil binding [chemical binding]; other site 585057006934 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 585057006935 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 585057006936 ATP binding site [chemical binding]; other site 585057006937 putative Mg++ binding site [ion binding]; other site 585057006938 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 585057006939 nucleotide binding region [chemical binding]; other site 585057006940 ATP-binding site [chemical binding]; other site 585057006941 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 585057006942 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 585057006943 5S rRNA interface [nucleotide binding]; other site 585057006944 CTC domain interface [polypeptide binding]; other site 585057006945 L16 interface [polypeptide binding]; other site 585057006946 nucleoid-associated protein NdpA; Validated; Region: PRK00378 585057006947 hypothetical protein; Provisional; Region: PRK13689 585057006948 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 585057006949 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 585057006950 Sulfatase; Region: Sulfatase; pfam00884 585057006951 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 585057006952 hypothetical protein; Provisional; Region: PRK09945 585057006953 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 585057006954 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 585057006955 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585057006956 transcriptional regulator NarP; Provisional; Region: PRK10403 585057006957 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 585057006958 active site 585057006959 phosphorylation site [posttranslational modification] 585057006960 intermolecular recognition site; other site 585057006961 dimerization interface [polypeptide binding]; other site 585057006962 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 585057006963 DNA binding residues [nucleotide binding] 585057006964 dimerization interface [polypeptide binding]; other site 585057006965 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 585057006966 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 585057006967 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 585057006968 binding surface 585057006969 TPR motif; other site 585057006970 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 585057006971 catalytic residues [active] 585057006972 central insert; other site 585057006973 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 585057006974 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13150 585057006975 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 585057006976 heme exporter protein CcmC; Region: ccmC; TIGR01191 585057006977 heme exporter protein CcmB; Region: ccmB; TIGR01190 585057006978 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 585057006979 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 585057006980 Walker A/P-loop; other site 585057006981 ATP binding site [chemical binding]; other site 585057006982 Q-loop/lid; other site 585057006983 ABC transporter signature motif; other site 585057006984 Walker B; other site 585057006985 D-loop; other site 585057006986 H-loop/switch region; other site 585057006987 cytochrome c-type protein NapC; Provisional; Region: PRK10617 585057006988 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 585057006989 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 585057006990 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 585057006991 4Fe-4S binding domain; Region: Fer4_5; pfam12801 585057006992 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 585057006993 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 585057006994 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 585057006995 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 585057006996 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 585057006997 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 585057006998 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 585057006999 [4Fe-4S] binding site [ion binding]; other site 585057007000 molybdopterin cofactor binding site; other site 585057007001 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 585057007002 molybdopterin cofactor binding site; other site 585057007003 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 585057007004 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 585057007005 secondary substrate binding site; other site 585057007006 primary substrate binding site; other site 585057007007 inhibition loop; other site 585057007008 dimerization interface [polypeptide binding]; other site 585057007009 malate:quinone oxidoreductase; Validated; Region: PRK05257 585057007010 Predicted dehydrogenase [General function prediction only]; Region: COG0579 585057007011 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 585057007012 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 585057007013 Walker A/P-loop; other site 585057007014 ATP binding site [chemical binding]; other site 585057007015 Q-loop/lid; other site 585057007016 ABC transporter signature motif; other site 585057007017 Walker B; other site 585057007018 D-loop; other site 585057007019 H-loop/switch region; other site 585057007020 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 585057007021 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 585057007022 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 585057007023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057007024 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 585057007025 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 585057007026 DNA binding site [nucleotide binding] 585057007027 active site 585057007028 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 585057007029 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 585057007030 trimer interface [polypeptide binding]; other site 585057007031 eyelet of channel; other site 585057007032 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 585057007033 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 585057007034 ATP binding site [chemical binding]; other site 585057007035 Mg2+ binding site [ion binding]; other site 585057007036 G-X-G motif; other site 585057007037 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 585057007038 putative binding surface; other site 585057007039 active site 585057007040 transcriptional regulator RcsB; Provisional; Region: PRK10840 585057007041 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 585057007042 active site 585057007043 phosphorylation site [posttranslational modification] 585057007044 intermolecular recognition site; other site 585057007045 dimerization interface [polypeptide binding]; other site 585057007046 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 585057007047 DNA binding residues [nucleotide binding] 585057007048 dimerization interface [polypeptide binding]; other site 585057007049 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 585057007050 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 585057007051 dimer interface [polypeptide binding]; other site 585057007052 phosphorylation site [posttranslational modification] 585057007053 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 585057007054 ATP binding site [chemical binding]; other site 585057007055 Mg2+ binding site [ion binding]; other site 585057007056 G-X-G motif; other site 585057007057 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 585057007058 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 585057007059 active site 585057007060 phosphorylation site [posttranslational modification] 585057007061 intermolecular recognition site; other site 585057007062 dimerization interface [polypeptide binding]; other site 585057007063 sensory histidine kinase AtoS; Provisional; Region: PRK11360 585057007064 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 585057007065 putative active site [active] 585057007066 heme pocket [chemical binding]; other site 585057007067 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 585057007068 dimer interface [polypeptide binding]; other site 585057007069 phosphorylation site [posttranslational modification] 585057007070 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 585057007071 ATP binding site [chemical binding]; other site 585057007072 Mg2+ binding site [ion binding]; other site 585057007073 G-X-G motif; other site 585057007074 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 585057007075 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 585057007076 active site 585057007077 phosphorylation site [posttranslational modification] 585057007078 intermolecular recognition site; other site 585057007079 dimerization interface [polypeptide binding]; other site 585057007080 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 585057007081 Walker A motif; other site 585057007082 ATP binding site [chemical binding]; other site 585057007083 Walker B motif; other site 585057007084 arginine finger; other site 585057007085 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057007086 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 585057007087 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 585057007088 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 585057007089 putative acyltransferase; Provisional; Region: PRK05790 585057007090 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 585057007091 dimer interface [polypeptide binding]; other site 585057007092 active site 585057007093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 585057007094 Predicted secreted protein [Function unknown]; Region: COG5445 585057007095 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 585057007096 Predicted secreted protein [Function unknown]; Region: COG5445 585057007097 Stage II sporulation protein; Region: SpoIID; pfam08486 585057007098 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 585057007099 fragment of putative large extracellular alpha-helical protein (part 2);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057007100 fragment of putative large extracellular alpha-helical protein (part 1);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057007101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 585057007102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 585057007103 DNA gyrase subunit A; Validated; Region: PRK05560 585057007104 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 585057007105 CAP-like domain; other site 585057007106 active site 585057007107 primary dimer interface [polypeptide binding]; other site 585057007108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007112 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007113 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057007114 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 585057007115 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 585057007116 active site pocket [active] 585057007117 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 585057007118 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007119 putative substrate translocation pore; other site 585057007120 Transcriptional regulators [Transcription]; Region: GntR; COG1802 585057007121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057007122 DNA-binding site [nucleotide binding]; DNA binding site 585057007123 FCD domain; Region: FCD; pfam07729 585057007124 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 585057007125 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 585057007126 S-adenosylmethionine binding site [chemical binding]; other site 585057007127 adhesin; Provisional; Region: PRK09752 585057007128 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 585057007129 Autotransporter beta-domain; Region: Autotransporter; pfam03797 585057007130 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 585057007131 ATP cone domain; Region: ATP-cone; pfam03477 585057007132 Class I ribonucleotide reductase; Region: RNR_I; cd01679 585057007133 active site 585057007134 dimer interface [polypeptide binding]; other site 585057007135 catalytic residues [active] 585057007136 effector binding site; other site 585057007137 R2 peptide binding site; other site 585057007138 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 585057007139 dimer interface [polypeptide binding]; other site 585057007140 putative radical transfer pathway; other site 585057007141 diiron center [ion binding]; other site 585057007142 tyrosyl radical; other site 585057007143 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 585057007144 catalytic loop [active] 585057007145 iron binding site [ion binding]; other site 585057007146 hypothetical protein; Provisional; Region: PRK09902 585057007147 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007148 putative substrate translocation pore; other site 585057007149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057007150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057007151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057007152 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 585057007153 dimerization interface [polypeptide binding]; other site 585057007154 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 585057007155 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 585057007156 active site 585057007157 catalytic site [active] 585057007158 metal binding site [ion binding]; metal-binding site 585057007159 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 585057007160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007161 putative substrate translocation pore; other site 585057007162 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 585057007163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057007164 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 585057007165 FAD binding domain; Region: FAD_binding_2; pfam00890 585057007166 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 585057007167 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057007168 Cysteine-rich domain; Region: CCG; pfam02754 585057007169 Cysteine-rich domain; Region: CCG; pfam02754 585057007170 hypothetical protein; Provisional; Region: PRK09956 585057007171 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 585057007172 hypothetical protein; Provisional; Region: PRK09956 585057007173 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 585057007174 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 585057007175 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007176 putative substrate translocation pore; other site 585057007177 fragment of putative epimerase/enolase/dehydratase (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057007178 Transposase; Region: HTH_Tnp_1; cl17663 585057007179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007180 putative transposase OrfB; Reviewed; Region: PHA02517 585057007181 HTH-like domain; Region: HTH_21; pfam13276 585057007182 Integrase core domain; Region: rve; pfam00665 585057007183 Integrase core domain; Region: rve_3; pfam13683 585057007184 fragment of putative epimerase/enolase/dehydratase (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057007185 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 585057007186 Transcriptional regulator [Transcription]; Region: IclR; COG1414 585057007187 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057007188 hypothetical protein; Provisional; Region: PRK03673 585057007189 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 585057007190 putative MPT binding site; other site 585057007191 Competence-damaged protein; Region: CinA; cl00666 585057007192 YfaZ precursor; Region: YfaZ; pfam07437 585057007193 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 585057007194 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 585057007195 catalytic core [active] 585057007196 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 585057007197 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 585057007198 inhibitor-cofactor binding pocket; inhibition site 585057007199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007200 catalytic residue [active] 585057007201 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 585057007202 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 585057007203 Ligand binding site; other site 585057007204 Putative Catalytic site; other site 585057007205 DXD motif; other site 585057007206 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 585057007207 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 585057007208 substrate binding site [chemical binding]; other site 585057007209 cosubstrate binding site; other site 585057007210 catalytic site [active] 585057007211 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 585057007212 active site 585057007213 hexamer interface [polypeptide binding]; other site 585057007214 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 585057007215 NAD binding site [chemical binding]; other site 585057007216 substrate binding site [chemical binding]; other site 585057007217 active site 585057007218 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 585057007219 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 585057007220 putative active site [active] 585057007221 putative catalytic site [active] 585057007222 putative Zn binding site [ion binding]; other site 585057007223 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 585057007224 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 585057007225 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 585057007226 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 585057007227 signal transduction protein PmrD; Provisional; Region: PRK15450 585057007228 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 585057007229 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 585057007230 acyl-activating enzyme (AAE) consensus motif; other site 585057007231 putative AMP binding site [chemical binding]; other site 585057007232 putative active site [active] 585057007233 putative CoA binding site [chemical binding]; other site 585057007234 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 585057007235 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 585057007236 active site 585057007237 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 585057007238 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 585057007239 substrate binding site [chemical binding]; other site 585057007240 oxyanion hole (OAH) forming residues; other site 585057007241 trimer interface [polypeptide binding]; other site 585057007242 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 585057007243 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 585057007244 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 585057007245 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 585057007246 dimer interface [polypeptide binding]; other site 585057007247 tetramer interface [polypeptide binding]; other site 585057007248 PYR/PP interface [polypeptide binding]; other site 585057007249 TPP binding site [chemical binding]; other site 585057007250 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 585057007251 TPP-binding site; other site 585057007252 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 585057007253 isochorismate synthases; Region: isochor_syn; TIGR00543 585057007254 hypothetical protein; Provisional; Region: PRK10404 585057007255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057007256 Coenzyme A binding pocket [chemical binding]; other site 585057007257 ribonuclease BN; Region: true_RNase_BN; TIGR02649 585057007258 deubiquitinase; Provisional; Region: PRK11836 585057007259 von Willebrand factor; Region: vWF_A; pfam12450 585057007260 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 585057007261 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 585057007262 metal ion-dependent adhesion site (MIDAS); other site 585057007263 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 585057007264 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057007265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057007266 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057007267 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057007268 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 585057007269 M28 Zn-Peptidases; Region: M28_like_1; cd05640 585057007270 metal binding site [ion binding]; metal-binding site 585057007271 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 585057007272 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 585057007273 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007274 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 585057007275 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007276 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 585057007277 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 585057007278 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007279 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 585057007280 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 585057007281 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 585057007282 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 585057007283 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 585057007284 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 585057007285 NADH dehydrogenase subunit G; Validated; Region: PRK08166 585057007286 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 585057007287 catalytic loop [active] 585057007288 iron binding site [ion binding]; other site 585057007289 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 585057007290 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 585057007291 [4Fe-4S] binding site [ion binding]; other site 585057007292 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 585057007293 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 585057007294 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 585057007295 SLBB domain; Region: SLBB; pfam10531 585057007296 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 585057007297 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 585057007298 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 585057007299 putative dimer interface [polypeptide binding]; other site 585057007300 [2Fe-2S] cluster binding site [ion binding]; other site 585057007301 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 585057007302 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 585057007303 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 585057007304 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 585057007305 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 585057007306 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 585057007307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057007308 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 585057007309 putative dimerization interface [polypeptide binding]; other site 585057007310 aminotransferase AlaT; Validated; Region: PRK09265 585057007311 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 585057007312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007313 homodimer interface [polypeptide binding]; other site 585057007314 catalytic residue [active] 585057007315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057007316 Zn2+ binding site [ion binding]; other site 585057007317 Mg2+ binding site [ion binding]; other site 585057007318 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 585057007319 transmembrane helices; other site 585057007320 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 585057007321 TrkA-C domain; Region: TrkA_C; pfam02080 585057007322 TrkA-C domain; Region: TrkA_C; pfam02080 585057007323 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 585057007324 putative phosphatase; Provisional; Region: PRK11587 585057007325 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057007326 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 585057007327 active site 585057007328 motif I; other site 585057007329 motif II; other site 585057007330 hypothetical protein; Validated; Region: PRK05445 585057007331 hypothetical protein; Provisional; Region: PRK01816 585057007332 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 585057007333 phosphate acetyltransferase; Reviewed; Region: PRK05632 585057007334 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 585057007335 DRTGG domain; Region: DRTGG; pfam07085 585057007336 phosphate acetyltransferase; Region: pta; TIGR00651 585057007337 hypothetical protein; Provisional; Region: PRK11588 585057007338 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 585057007339 nudix motif; other site 585057007340 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 585057007341 active site 585057007342 metal binding site [ion binding]; metal-binding site 585057007343 homotetramer interface [polypeptide binding]; other site 585057007344 glutathione S-transferase; Provisional; Region: PRK15113 585057007345 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 585057007346 C-terminal domain interface [polypeptide binding]; other site 585057007347 GSH binding site (G-site) [chemical binding]; other site 585057007348 dimer interface [polypeptide binding]; other site 585057007349 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 585057007350 N-terminal domain interface [polypeptide binding]; other site 585057007351 putative dimer interface [polypeptide binding]; other site 585057007352 putative substrate binding pocket (H-site) [chemical binding]; other site 585057007353 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 585057007354 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 585057007355 C-terminal domain interface [polypeptide binding]; other site 585057007356 GSH binding site (G-site) [chemical binding]; other site 585057007357 dimer interface [polypeptide binding]; other site 585057007358 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 585057007359 N-terminal domain interface [polypeptide binding]; other site 585057007360 putative dimer interface [polypeptide binding]; other site 585057007361 active site 585057007362 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 585057007363 homooctamer interface [polypeptide binding]; other site 585057007364 active site 585057007365 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 585057007366 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 585057007367 putative NAD(P) binding site [chemical binding]; other site 585057007368 putative active site [active] 585057007369 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 585057007370 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 585057007371 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 585057007372 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 585057007373 homodimer interface [polypeptide binding]; other site 585057007374 substrate-cofactor binding pocket; other site 585057007375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007376 catalytic residue [active] 585057007377 putative transposase; Provisional; Region: PRK09857 585057007378 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 585057007379 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 585057007380 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585057007381 Walker A/P-loop; other site 585057007382 ATP binding site [chemical binding]; other site 585057007383 Q-loop/lid; other site 585057007384 ABC transporter signature motif; other site 585057007385 Walker B; other site 585057007386 D-loop; other site 585057007387 H-loop/switch region; other site 585057007388 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 585057007389 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 585057007390 dimer interface [polypeptide binding]; other site 585057007391 conserved gate region; other site 585057007392 putative PBP binding loops; other site 585057007393 ABC-ATPase subunit interface; other site 585057007394 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 585057007395 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 585057007396 dimer interface [polypeptide binding]; other site 585057007397 conserved gate region; other site 585057007398 putative PBP binding loops; other site 585057007399 ABC-ATPase subunit interface; other site 585057007400 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 585057007401 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 585057007402 substrate binding pocket [chemical binding]; other site 585057007403 membrane-bound complex binding site; other site 585057007404 hinge residues; other site 585057007405 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 585057007406 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 585057007407 substrate binding pocket [chemical binding]; other site 585057007408 membrane-bound complex binding site; other site 585057007409 hinge residues; other site 585057007410 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 585057007411 amidophosphoribosyltransferase; Provisional; Region: PRK09246 585057007412 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 585057007413 active site 585057007414 tetramer interface [polypeptide binding]; other site 585057007415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057007416 active site 585057007417 colicin V production protein; Provisional; Region: PRK10845 585057007418 cell division protein DedD; Provisional; Region: PRK11633 585057007419 Sporulation related domain; Region: SPOR; pfam05036 585057007420 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 585057007421 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057007422 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057007423 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 585057007424 hypothetical protein; Provisional; Region: PRK10847 585057007425 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 585057007426 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 585057007427 dimerization interface 3.5A [polypeptide binding]; other site 585057007428 active site 585057007429 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 585057007430 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 585057007431 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 585057007432 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 585057007433 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 585057007434 ligand binding site [chemical binding]; other site 585057007435 NAD binding site [chemical binding]; other site 585057007436 catalytic site [active] 585057007437 homodimer interface [polypeptide binding]; other site 585057007438 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 585057007439 putative transporter; Provisional; Region: PRK12382 585057007440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007441 putative substrate translocation pore; other site 585057007442 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 585057007443 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 585057007444 dimer interface [polypeptide binding]; other site 585057007445 active site 585057007446 Uncharacterized conserved protein [Function unknown]; Region: COG4121 585057007447 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 585057007448 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 585057007449 YfcL protein; Region: YfcL; pfam08891 585057007450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 585057007451 hypothetical protein; Provisional; Region: PRK10621 585057007452 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 585057007453 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 585057007454 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 585057007455 Tetramer interface [polypeptide binding]; other site 585057007456 active site 585057007457 FMN-binding site [chemical binding]; other site 585057007458 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 585057007459 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 585057007460 S-adenosylmethionine binding site [chemical binding]; other site 585057007461 hypothetical protein; Provisional; Region: PRK04946 585057007462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 585057007463 AAA domain; Region: AAA_23; pfam13476 585057007464 Walker A/P-loop; other site 585057007465 ATP binding site [chemical binding]; other site 585057007466 Q-loop/lid; other site 585057007467 ABC transporter signature motif; other site 585057007468 AAA domain; Region: AAA_21; pfam13304 585057007469 Walker B; other site 585057007470 D-loop; other site 585057007471 H-loop/switch region; other site 585057007472 TIGR02646 family protein; Region: TIGR02646 585057007473 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 585057007474 Fimbrial protein; Region: Fimbrial; cl01416 585057007475 Fimbrial protein; Region: Fimbrial; cl01416 585057007476 Fimbrial protein; Region: Fimbrial; cl01416 585057007477 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 585057007478 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057007479 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057007480 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 585057007481 PapC N-terminal domain; Region: PapC_N; pfam13954 585057007482 Outer membrane usher protein; Region: Usher; pfam00577 585057007483 PapC C-terminal domain; Region: PapC_C; pfam13953 585057007484 Fimbrial protein; Region: Fimbrial; cl01416 585057007485 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 585057007486 catalytic core [active] 585057007487 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 585057007488 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 585057007489 substrate binding site [chemical binding]; other site 585057007490 oxyanion hole (OAH) forming residues; other site 585057007491 trimer interface [polypeptide binding]; other site 585057007492 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 585057007493 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 585057007494 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 585057007495 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 585057007496 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 585057007497 dimer interface [polypeptide binding]; other site 585057007498 active site 585057007499 conserved hypothetical protein; Region: TIGR00743 585057007500 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 585057007501 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 585057007502 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 585057007503 integrase; Provisional; Region: PRK09692 585057007504 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 585057007505 active site 585057007506 Int/Topo IB signature motif; other site 585057007507 Transposase; Region: HTH_Tnp_1; cl17663 585057007508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007509 putative transposase OrfB; Reviewed; Region: PHA02517 585057007510 HTH-like domain; Region: HTH_21; pfam13276 585057007511 Integrase core domain; Region: rve; pfam00665 585057007512 Integrase core domain; Region: rve_3; pfam13683 585057007513 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 585057007514 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 585057007515 active site 585057007516 DNA binding site [nucleotide binding] 585057007517 Int/Topo IB signature motif; other site 585057007518 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 585057007519 active site 585057007520 DNA binding site [nucleotide binding] 585057007521 Int/Topo IB signature motif; other site 585057007522 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 585057007523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057007524 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 585057007525 dimerization interface [polypeptide binding]; other site 585057007526 substrate binding pocket [chemical binding]; other site 585057007527 permease DsdX; Provisional; Region: PRK09921 585057007528 GntP family permease; Region: GntP_permease; pfam02447 585057007529 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 585057007530 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057007531 catalytic residue [active] 585057007532 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 585057007533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007534 putative substrate translocation pore; other site 585057007535 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 585057007536 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057007537 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057007538 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 585057007539 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 585057007540 active site 585057007541 phosphorylation site [posttranslational modification] 585057007542 intermolecular recognition site; other site 585057007543 dimerization interface [polypeptide binding]; other site 585057007544 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 585057007545 DNA binding residues [nucleotide binding] 585057007546 dimerization interface [polypeptide binding]; other site 585057007547 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 585057007548 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 585057007549 substrate binding pocket [chemical binding]; other site 585057007550 membrane-bound complex binding site; other site 585057007551 hinge residues; other site 585057007552 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 585057007553 substrate binding pocket [chemical binding]; other site 585057007554 membrane-bound complex binding site; other site 585057007555 hinge residues; other site 585057007556 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 585057007557 dimer interface [polypeptide binding]; other site 585057007558 phosphorylation site [posttranslational modification] 585057007559 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 585057007560 ATP binding site [chemical binding]; other site 585057007561 Mg2+ binding site [ion binding]; other site 585057007562 G-X-G motif; other site 585057007563 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 585057007564 active site 585057007565 phosphorylation site [posttranslational modification] 585057007566 intermolecular recognition site; other site 585057007567 dimerization interface [polypeptide binding]; other site 585057007568 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 585057007569 putative binding surface; other site 585057007570 active site 585057007571 putative CoA-transferase; Provisional; Region: PRK11430 585057007572 putative transporter YfdV; Provisional; Region: PRK09903 585057007573 oxalyl-CoA decarboxylase; Region: oxalate_oxc; TIGR03254 585057007574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 585057007575 PYR/PP interface [polypeptide binding]; other site 585057007576 dimer interface [polypeptide binding]; other site 585057007577 TPP binding site [chemical binding]; other site 585057007578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 585057007579 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 585057007580 TPP-binding site; other site 585057007581 dimer interface [polypeptide binding]; other site 585057007582 formyl-coenzyme A transferase; Provisional; Region: PRK05398 585057007583 hypothetical protein; Provisional; Region: PRK10316 585057007584 YfdX protein; Region: YfdX; pfam10938 585057007585 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 585057007586 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 585057007587 putative acyl-acceptor binding pocket; other site 585057007588 aminotransferase; Validated; Region: PRK08175 585057007589 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 585057007590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007591 homodimer interface [polypeptide binding]; other site 585057007592 catalytic residue [active] 585057007593 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 585057007594 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 585057007595 GAF domain; Region: GAF; pfam01590 585057007596 Histidine kinase; Region: His_kinase; pfam06580 585057007597 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 585057007598 ATP binding site [chemical binding]; other site 585057007599 Mg2+ binding site [ion binding]; other site 585057007600 G-X-G motif; other site 585057007601 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 585057007602 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 585057007603 active site 585057007604 phosphorylation site [posttranslational modification] 585057007605 intermolecular recognition site; other site 585057007606 dimerization interface [polypeptide binding]; other site 585057007607 LytTr DNA-binding domain; Region: LytTR; pfam04397 585057007608 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057007609 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057007610 fragment of putative fused PTS enzymes (multiphosphoryl transfer protein): Hpr component ; enzyme I component ; enzyme IIA com;Evidence 7 : Gene remnant; Product type pt : putative transporter 585057007611 fragment of putative fused PTS enzymes (multiphosphoryl transfer protein): Hpr component ; enzyme I component ; enzyme IIA com;Evidence 7 : Gene remnant; Product type pt : putative transporter 585057007612 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 585057007613 oligomer interface [polypeptide binding]; other site 585057007614 active site 585057007615 metal binding site [ion binding]; metal-binding site 585057007616 aminopeptidase; Provisional; Region: PRK09795 585057007617 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 585057007618 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 585057007619 active site 585057007620 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 585057007621 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 585057007622 active site 585057007623 P-loop; other site 585057007624 phosphorylation site [posttranslational modification] 585057007625 glucokinase; Provisional; Region: glk; PRK00292 585057007626 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057007627 nucleotide binding site [chemical binding]; other site 585057007628 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 585057007629 Cl- selectivity filter; other site 585057007630 Cl- binding residues [ion binding]; other site 585057007631 pore gating glutamate residue; other site 585057007632 dimer interface [polypeptide binding]; other site 585057007633 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 585057007634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007635 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057007636 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057007637 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057007638 HTH-like domain; Region: HTH_21; pfam13276 585057007639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057007640 Integrase core domain; Region: rve; pfam00665 585057007641 Integrase core domain; Region: rve_2; pfam13333 585057007642 manganese transport protein MntH; Reviewed; Region: PRK00701 585057007643 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 585057007644 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 585057007645 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 585057007646 Nucleoside recognition; Region: Gate; pfam07670 585057007647 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 585057007648 MASE1; Region: MASE1; pfam05231 585057007649 diguanylate cyclase; Region: GGDEF; smart00267 585057007650 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 585057007651 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 585057007652 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 585057007653 salt bridge; other site 585057007654 non-specific DNA binding site [nucleotide binding]; other site 585057007655 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 585057007656 sequence-specific DNA binding site [nucleotide binding]; other site 585057007657 fragment of putative transposase (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057007658 fragment of putative transposase (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057007659 Transposase IS200 like; Region: Y1_Tnp; pfam01797 585057007660 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 585057007661 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 585057007662 active site 585057007663 HIGH motif; other site 585057007664 KMSKS motif; other site 585057007665 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 585057007666 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 585057007667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057007668 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 585057007669 dimerization interface [polypeptide binding]; other site 585057007670 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 585057007671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057007672 putative substrate translocation pore; other site 585057007673 purine nucleoside phosphorylase; Provisional; Region: PRK08202 585057007674 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 585057007675 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 585057007676 lysophospholipid transporter LplT; Provisional; Region: PRK11195; cl19150 585057007677 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 585057007678 hypothetical protein; Provisional; Region: PRK11528 585057007679 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 585057007680 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 585057007681 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 585057007682 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 585057007683 nucleotide binding pocket [chemical binding]; other site 585057007684 K-X-D-G motif; other site 585057007685 catalytic site [active] 585057007686 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 585057007687 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 585057007688 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 585057007689 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 585057007690 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 585057007691 Dimer interface [polypeptide binding]; other site 585057007692 BRCT sequence motif; other site 585057007693 cell division protein ZipA; Provisional; Region: PRK03427 585057007694 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 585057007695 FtsZ protein binding site [polypeptide binding]; other site 585057007696 putative sulfate transport protein CysZ; Validated; Region: PRK04949 585057007697 cysteine synthase; Region: PLN02565 585057007698 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 585057007699 dimer interface [polypeptide binding]; other site 585057007700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007701 catalytic residue [active] 585057007702 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 585057007703 dimerization domain swap beta strand [polypeptide binding]; other site 585057007704 regulatory protein interface [polypeptide binding]; other site 585057007705 active site 585057007706 regulatory phosphorylation site [posttranslational modification]; other site 585057007707 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 585057007708 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 585057007709 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585057007710 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 585057007711 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 585057007712 HPr interaction site; other site 585057007713 glycerol kinase (GK) interaction site [polypeptide binding]; other site 585057007714 active site 585057007715 phosphorylation site [posttranslational modification] 585057007716 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 585057007717 dimer interface [polypeptide binding]; other site 585057007718 pyridoxal binding site [chemical binding]; other site 585057007719 ATP binding site [chemical binding]; other site 585057007720 hypothetical protein; Provisional; Region: PRK10318 585057007721 cysteine synthase; Region: PLN02565 585057007722 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 585057007723 dimer interface [polypeptide binding]; other site 585057007724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057007725 catalytic residue [active] 585057007726 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 585057007727 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 585057007728 Walker A/P-loop; other site 585057007729 ATP binding site [chemical binding]; other site 585057007730 Q-loop/lid; other site 585057007731 ABC transporter signature motif; other site 585057007732 Walker B; other site 585057007733 D-loop; other site 585057007734 H-loop/switch region; other site 585057007735 TOBE-like domain; Region: TOBE_3; pfam12857 585057007736 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 585057007737 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 585057007738 dimer interface [polypeptide binding]; other site 585057007739 conserved gate region; other site 585057007740 putative PBP binding loops; other site 585057007741 ABC-ATPase subunit interface; other site 585057007742 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 585057007743 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 585057007744 dimer interface [polypeptide binding]; other site 585057007745 conserved gate region; other site 585057007746 putative PBP binding loops; other site 585057007747 ABC-ATPase subunit interface; other site 585057007748 thiosulfate transporter subunit; Provisional; Region: PRK10852 585057007749 short chain dehydrogenase; Provisional; Region: PRK08226 585057007750 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 585057007751 NAD binding site [chemical binding]; other site 585057007752 homotetramer interface [polypeptide binding]; other site 585057007753 homodimer interface [polypeptide binding]; other site 585057007754 active site 585057007755 transcriptional regulator MurR; Provisional; Region: PRK15482 585057007756 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 585057007757 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 585057007758 putative active site [active] 585057007759 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 585057007760 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 585057007761 putative active site [active] 585057007762 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 585057007763 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 585057007764 active site turn [active] 585057007765 phosphorylation site [posttranslational modification] 585057007766 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 585057007767 putative periplasmic esterase; Provisional; Region: PRK03642 585057007768 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 585057007769 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 585057007770 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 585057007771 putative acetyltransferase; Provisional; Region: PRK03624 585057007772 Uncharacterized conserved protein [Function unknown]; Region: COG3375 585057007773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057007774 Coenzyme A binding pocket [chemical binding]; other site 585057007775 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 585057007776 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 585057007777 active site 585057007778 metal binding site [ion binding]; metal-binding site 585057007779 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 585057007780 transcriptional regulator EutR; Provisional; Region: PRK10130 585057007781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057007782 carboxysome structural protein EutK; Provisional; Region: PRK15466 585057007783 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057007784 Hexamer interface [polypeptide binding]; other site 585057007785 Hexagonal pore residue; other site 585057007786 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 585057007787 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 585057007788 Hexamer interface [polypeptide binding]; other site 585057007789 Hexagonal pore residue; other site 585057007790 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 585057007791 putative hexamer interface [polypeptide binding]; other site 585057007792 putative hexagonal pore; other site 585057007793 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 585057007794 fragment of ethanolamine ammonia-lyase, large subunit, heavy chain (part 2);Evidence 7 : Gene remnant; Product type e : enzyme 585057007795 fragment of ethanolamine ammonia-lyase, large subunit, heavy chain (part 1);Evidence 7 : Gene remnant; Product type e : enzyme 585057007796 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 585057007797 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 585057007798 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 585057007799 active site 585057007800 metal binding site [ion binding]; metal-binding site 585057007801 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 585057007802 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057007803 nucleotide binding site [chemical binding]; other site 585057007804 Cell division protein FtsA; Region: FtsA; cl17206 585057007805 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 585057007806 putative catalytic cysteine [active] 585057007807 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 585057007808 Hexamer/Pentamer interface [polypeptide binding]; other site 585057007809 central pore; other site 585057007810 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 585057007811 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057007812 Hexamer interface [polypeptide binding]; other site 585057007813 Hexagonal pore residue; other site 585057007814 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 585057007815 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 585057007816 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 585057007817 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 585057007818 G1 box; other site 585057007819 GTP/Mg2+ binding site [chemical binding]; other site 585057007820 G2 box; other site 585057007821 Switch I region; other site 585057007822 G3 box; other site 585057007823 Switch II region; other site 585057007824 G4 box; other site 585057007825 G5 box; other site 585057007826 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 585057007827 putative hexamer interface [polypeptide binding]; other site 585057007828 putative hexagonal pore; other site 585057007829 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 585057007830 Malic enzyme, N-terminal domain; Region: malic; pfam00390 585057007831 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 585057007832 putative NAD(P) binding site [chemical binding]; other site 585057007833 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 585057007834 transaldolase-like protein; Provisional; Region: PTZ00411 585057007835 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 585057007836 active site 585057007837 dimer interface [polypeptide binding]; other site 585057007838 catalytic residue [active] 585057007839 transketolase; Reviewed; Region: PRK12753 585057007840 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 585057007841 TPP-binding site [chemical binding]; other site 585057007842 dimer interface [polypeptide binding]; other site 585057007843 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 585057007844 PYR/PP interface [polypeptide binding]; other site 585057007845 dimer interface [polypeptide binding]; other site 585057007846 TPP binding site [chemical binding]; other site 585057007847 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585057007848 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 585057007849 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 585057007850 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 585057007851 dimer interface [polypeptide binding]; other site 585057007852 ADP-ribose binding site [chemical binding]; other site 585057007853 active site 585057007854 nudix motif; other site 585057007855 metal binding site [ion binding]; metal-binding site 585057007856 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 585057007857 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 585057007858 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 585057007859 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057007860 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057007861 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 585057007862 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 585057007863 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 585057007864 dimerization interface [polypeptide binding]; other site 585057007865 Histidine kinase; Region: HisKA_3; pfam07730 585057007866 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 585057007867 ATP binding site [chemical binding]; other site 585057007868 Mg2+ binding site [ion binding]; other site 585057007869 G-X-G motif; other site 585057007870 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 585057007871 MMPL family; Region: MMPL; cl14618 585057007872 MMPL family; Region: MMPL; cl14618 585057007873 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 585057007874 putative catalytic residues [active] 585057007875 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 585057007876 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 585057007877 metal binding site [ion binding]; metal-binding site 585057007878 dimer interface [polypeptide binding]; other site 585057007879 hypothetical protein; Provisional; Region: PRK13664 585057007880 putative hydrolase; Provisional; Region: PRK11460 585057007881 Predicted esterase [General function prediction only]; Region: COG0400 585057007882 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 585057007883 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 585057007884 Helicase; Region: Helicase_RecD; pfam05127 585057007885 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 585057007886 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 585057007887 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 585057007888 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 585057007889 ATP binding site [chemical binding]; other site 585057007890 active site 585057007891 substrate binding site [chemical binding]; other site 585057007892 lipoprotein; Provisional; Region: PRK11679 585057007893 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 585057007894 dimer interface [polypeptide binding]; other site 585057007895 active site 585057007896 catalytic residue [active] 585057007897 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 585057007898 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 585057007899 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 585057007900 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 585057007901 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 585057007902 catalytic triad [active] 585057007903 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 585057007904 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 585057007905 hydrogenase 4 subunit B; Validated; Region: PRK06521 585057007906 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007907 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 585057007908 hydrogenase 4 subunit D; Validated; Region: PRK06525 585057007909 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007910 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 585057007911 hydrogenase 4 subunit F; Validated; Region: PRK06458 585057007912 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057007913 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 585057007914 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 585057007915 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 585057007916 hydrogenase 4 subunit H; Validated; Region: PRK08222 585057007917 4Fe-4S binding domain; Region: Fer4; pfam00037 585057007918 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 585057007919 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 585057007920 fragment of DNA-binding transcriptional activator, formate sensing (part 1);Evidence 7 : Gene remnant; Product type r : regulator 585057007921 fragment of DNA-binding transcriptional activator, formate sensing (part 2);Evidence 7 : Gene remnant; Product type r : regulator 585057007922 putative formate transporter; Provisional; Region: focB; PRK09713 585057007923 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 585057007924 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 585057007925 Peptidase family M48; Region: Peptidase_M48; cl12018 585057007926 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 585057007927 catalytic residues [active] 585057007928 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 585057007929 DNA replication initiation factor; Provisional; Region: PRK08084 585057007930 uracil transporter; Provisional; Region: PRK10720 585057007931 uracil-xanthine permease; Region: ncs2; TIGR00801 585057007932 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057007933 active site 585057007934 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 585057007935 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 585057007936 dimerization interface [polypeptide binding]; other site 585057007937 putative ATP binding site [chemical binding]; other site 585057007938 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 585057007939 active site 585057007940 substrate binding site [chemical binding]; other site 585057007941 cosubstrate binding site; other site 585057007942 catalytic site [active] 585057007943 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 585057007944 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 585057007945 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 585057007946 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 585057007947 domain interface [polypeptide binding]; other site 585057007948 active site 585057007949 catalytic site [active] 585057007950 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 585057007951 domain interface [polypeptide binding]; other site 585057007952 active site 585057007953 catalytic site [active] 585057007954 exopolyphosphatase; Provisional; Region: PRK10854 585057007955 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 585057007956 fragment of conserved hypothetical protein; putative inner membrane protein (part 2);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057007957 fragment of conserved hypothetical protein; putative inner membrane protein (part 1);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057007958 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 585057007959 fragment of conserved hypothetical protein (part 1);Evidence 7 : Gene remnant 585057007960 Transposase; Region: HTH_Tnp_1; cl17663 585057007961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007962 HTH-like domain; Region: HTH_21; pfam13276 585057007963 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057007964 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 585057007965 putative active site [active] 585057007966 putative NTP binding site [chemical binding]; other site 585057007967 putative nucleic acid binding site [nucleotide binding]; other site 585057007968 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057007969 Integrase core domain; Region: rve; pfam00665 585057007970 Integrase core domain; Region: rve_3; pfam13683 585057007971 fragment of conserved hypothetical protein (part 2);Evidence 7 : Gene remnant 585057007972 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 585057007973 Predicted chitinase [General function prediction only]; Region: COG3179 585057007974 N terminal extension of bacteriophage endosialidase; Region: End_N_terminal; pfam12218 585057007975 Catalytic beta propeller domain of bacteriophage endosialidase; Region: End_beta_propel; pfam12217 585057007976 Catalytic domain of bacteriophage endosialidase; Region: End_tail_spike; pfam12219 585057007977 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 585057007978 Phage anti-repressor protein [Transcription]; Region: COG3561 585057007979 conserved hypothetical protein from phage origin. Similar to PhiV10p20 (fragment 2);Evidence 4 : Homologs of previously reported genes of unknown function 585057007980 Transposase; Region: HTH_Tnp_1; cl17663 585057007981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007982 putative transposase OrfB; Reviewed; Region: PHA02517 585057007983 HTH-like domain; Region: HTH_21; pfam13276 585057007984 Integrase core domain; Region: rve; pfam00665 585057007985 Integrase core domain; Region: rve_3; pfam13683 585057007986 HTH-like domain; Region: HTH_21; pfam13276 585057007987 Transposase; Region: HTH_Tnp_1; cl17663 585057007988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057007989 conserved hypothetical protein from phage origin. Similar to PhiV10p20 (fragment 1);Evidence 4 : Homologs of previously reported genes of unknown function 585057007990 virion protein; Provisional; Region: V; PHA02564 585057007991 hypothetical protein; Region: PHA00660 585057007992 hypothetical protein; Region: PHA01733 585057007993 hypothetical protein; Region: PHA00661 585057007994 hypothetical protein; Region: PHA00662 585057007995 hypothetical protein; Region: PHA00669 585057007996 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 585057007997 hypothetical protein; Region: PHA00664 585057007998 major capsid protein; Region: PHA00665 585057007999 putative protease; Region: PHA00666 585057008000 hypothetical protein; Region: PHA00670 585057008001 Terminase small subunit; Region: Terminase_2; pfam03592 585057008002 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 585057008003 Protein of unknown function (DUF551); Region: DUF551; pfam04448 585057008004 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 585057008005 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 585057008006 Replication protein P; Region: Phage_lambda_P; pfam06992 585057008007 Pyocin large subunit [General function prediction only]; Region: COG5529 585057008008 Helix-turn-helix domain; Region: HTH_36; pfam13730 585057008009 primosomal protein DnaI; Provisional; Region: PRK02854 585057008010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057008011 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 585057008012 sequence-specific DNA binding site [nucleotide binding]; other site 585057008013 salt bridge; other site 585057008014 Putative exodeoxyribonuclease 8 (partial);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 585057008015 RecT family; Region: RecT; cl04285 585057008016 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 585057008017 PerC transcriptional activator; Region: PerC; pfam06069 585057008018 MT-A70; Region: MT-A70; cl01947 585057008019 integrase; Provisional; Region: PRK09692 585057008020 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 585057008021 active site 585057008022 Int/Topo IB signature motif; other site 585057008023 GMP synthase; Reviewed; Region: guaA; PRK00074 585057008024 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 585057008025 AMP/PPi binding site [chemical binding]; other site 585057008026 candidate oxyanion hole; other site 585057008027 catalytic triad [active] 585057008028 potential glutamine specificity residues [chemical binding]; other site 585057008029 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 585057008030 ATP Binding subdomain [chemical binding]; other site 585057008031 Ligand Binding sites [chemical binding]; other site 585057008032 Dimerization subdomain; other site 585057008033 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 585057008034 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 585057008035 active site 585057008036 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 585057008037 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 585057008038 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 585057008039 generic binding surface II; other site 585057008040 generic binding surface I; other site 585057008041 RatA-like protein; Provisional; Region: PRK15316 585057008042 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008043 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008044 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008045 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008046 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008047 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008048 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008049 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008050 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008051 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008052 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008053 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008054 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008055 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008056 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008057 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008058 Salmonella repeat of unknown function (DUF824); Region: DUF824; pfam05688 585057008059 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 585057008060 intimin-like protein SinH; Provisional; Region: PRK15318 585057008061 intimin-like protein SinH; Provisional; Region: PRK15318 585057008062 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 585057008063 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 585057008064 GTP-binding protein Der; Reviewed; Region: PRK00093 585057008065 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 585057008066 G1 box; other site 585057008067 GTP/Mg2+ binding site [chemical binding]; other site 585057008068 Switch I region; other site 585057008069 G2 box; other site 585057008070 Switch II region; other site 585057008071 G3 box; other site 585057008072 G4 box; other site 585057008073 G5 box; other site 585057008074 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 585057008075 G1 box; other site 585057008076 GTP/Mg2+ binding site [chemical binding]; other site 585057008077 Switch I region; other site 585057008078 G2 box; other site 585057008079 G3 box; other site 585057008080 Switch II region; other site 585057008081 G4 box; other site 585057008082 G5 box; other site 585057008083 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 585057008084 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 585057008085 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 585057008086 Trp docking motif [polypeptide binding]; other site 585057008087 active site 585057008088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 585057008089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 585057008090 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 585057008091 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 585057008092 dimer interface [polypeptide binding]; other site 585057008093 motif 1; other site 585057008094 active site 585057008095 motif 2; other site 585057008096 motif 3; other site 585057008097 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 585057008098 anticodon binding site; other site 585057008099 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 585057008100 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 585057008101 cytoskeletal protein RodZ; Provisional; Region: PRK10856 585057008102 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 585057008103 non-specific DNA binding site [nucleotide binding]; other site 585057008104 salt bridge; other site 585057008105 sequence-specific DNA binding site [nucleotide binding]; other site 585057008106 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 585057008107 23S rRNA m2A2503 methyltransferase; Region: TIGR00048 585057008108 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 585057008109 FeS/SAM binding site; other site 585057008110 Nucleoside diphosphate kinase; Region: NDK; pfam00334 585057008111 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 585057008112 active site 585057008113 multimer interface [polypeptide binding]; other site 585057008114 penicillin-binding protein 1C; Provisional; Region: PRK11240 585057008115 Transglycosylase; Region: Transgly; pfam00912 585057008116 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 585057008117 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 585057008118 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 585057008119 MG2 domain; Region: A2M_N; pfam01835 585057008120 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 585057008121 Alpha-2-macroglobulin family; Region: A2M; pfam00207 585057008122 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 585057008123 surface patch; other site 585057008124 thioester region; other site 585057008125 specificity defining residues; other site 585057008126 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 585057008127 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 585057008128 active site residue [active] 585057008129 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 585057008130 active site residue [active] 585057008131 SseB protein N-terminal domain; Region: SseB; pfam07179 585057008132 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 585057008133 SseB protein C-terminal domain; Region: SseB_C; pfam14581 585057008134 aminopeptidase B; Provisional; Region: PRK05015 585057008135 Peptidase; Region: DUF3663; pfam12404 585057008136 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 585057008137 interface (dimer of trimers) [polypeptide binding]; other site 585057008138 Substrate-binding/catalytic site; other site 585057008139 Zn-binding sites [ion binding]; other site 585057008140 hypothetical protein; Provisional; Region: PRK10721 585057008141 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 585057008142 catalytic loop [active] 585057008143 iron binding site [ion binding]; other site 585057008144 chaperone protein HscA; Provisional; Region: hscA; PRK05183 585057008145 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 585057008146 nucleotide binding site [chemical binding]; other site 585057008147 putative NEF/HSP70 interaction site [polypeptide binding]; other site 585057008148 SBD interface [polypeptide binding]; other site 585057008149 co-chaperone HscB; Provisional; Region: hscB; PRK05014 585057008150 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 585057008151 HSP70 interaction site [polypeptide binding]; other site 585057008152 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 585057008153 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 585057008154 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 585057008155 trimerization site [polypeptide binding]; other site 585057008156 active site 585057008157 cysteine desulfurase; Provisional; Region: PRK14012 585057008158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057008159 catalytic residue [active] 585057008160 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 585057008161 Rrf2 family protein; Region: rrf2_super; TIGR00738 585057008162 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 585057008163 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 585057008164 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 585057008165 active site 585057008166 dimerization interface [polypeptide binding]; other site 585057008167 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 585057008168 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 585057008169 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 585057008170 PRD domain; Region: PRD; pfam00874 585057008171 PRD domain; Region: PRD; pfam00874 585057008172 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057008173 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 585057008174 putative substrate translocation pore; other site 585057008175 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 585057008176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057008177 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 585057008178 dimerization interface [polypeptide binding]; other site 585057008179 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 585057008180 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 585057008181 iron-sulfur cluster [ion binding]; other site 585057008182 [2Fe-2S] cluster binding site [ion binding]; other site 585057008183 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 585057008184 beta subunit interface [polypeptide binding]; other site 585057008185 alpha subunit interface [polypeptide binding]; other site 585057008186 active site 585057008187 substrate binding site [chemical binding]; other site 585057008188 Fe binding site [ion binding]; other site 585057008189 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 585057008190 inter-subunit interface; other site 585057008191 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 585057008192 [2Fe-2S] cluster binding site [ion binding]; other site 585057008193 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 585057008194 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 585057008195 NAD binding site [chemical binding]; other site 585057008196 active site 585057008197 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 585057008198 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 585057008199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057008200 Reductase C-terminal; Region: Reductase_C; pfam14759 585057008201 Predicted membrane protein [Function unknown]; Region: COG2259 585057008202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008203 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008204 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008205 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057008206 HTH-like domain; Region: HTH_21; pfam13276 585057008207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057008208 Integrase core domain; Region: rve; pfam00665 585057008209 Integrase core domain; Region: rve_2; pfam13333 585057008210 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 585057008211 active site 585057008212 catalytic residues [active] 585057008213 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057008214 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 585057008215 putative NAD(P) binding site [chemical binding]; other site 585057008216 catalytic Zn binding site [ion binding]; other site 585057008217 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 585057008218 TM-ABC transporter signature motif; other site 585057008219 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 585057008220 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057008221 Walker A/P-loop; other site 585057008222 ATP binding site [chemical binding]; other site 585057008223 Q-loop/lid; other site 585057008224 ABC transporter signature motif; other site 585057008225 Walker B; other site 585057008226 D-loop; other site 585057008227 H-loop/switch region; other site 585057008228 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057008229 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 585057008230 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 585057008231 ligand binding site [chemical binding]; other site 585057008232 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 585057008233 TPR motif; other site 585057008234 Tetratricopeptide repeat; Region: TPR_16; pfam13432 585057008235 binding surface 585057008236 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 585057008237 binding surface 585057008238 Tetratricopeptide repeat; Region: TPR_16; pfam13432 585057008239 TPR motif; other site 585057008240 TPR repeat; Region: TPR_11; pfam13414 585057008241 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 585057008242 TPR motif; other site 585057008243 binding surface 585057008244 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 585057008245 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057008246 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057008247 nucleotide binding site [chemical binding]; other site 585057008248 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 585057008249 dimer interface [polypeptide binding]; other site 585057008250 active site 585057008251 glycine-pyridoxal phosphate binding site [chemical binding]; other site 585057008252 folate binding site [chemical binding]; other site 585057008253 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 585057008254 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 585057008255 heme-binding site [chemical binding]; other site 585057008256 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 585057008257 FAD binding pocket [chemical binding]; other site 585057008258 FAD binding motif [chemical binding]; other site 585057008259 phosphate binding motif [ion binding]; other site 585057008260 beta-alpha-beta structure motif; other site 585057008261 NAD binding pocket [chemical binding]; other site 585057008262 Heme binding pocket [chemical binding]; other site 585057008263 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 585057008264 response regulator GlrR; Provisional; Region: PRK15115 585057008265 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 585057008266 active site 585057008267 phosphorylation site [posttranslational modification] 585057008268 intermolecular recognition site; other site 585057008269 dimerization interface [polypeptide binding]; other site 585057008270 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 585057008271 Walker A motif; other site 585057008272 ATP binding site [chemical binding]; other site 585057008273 Walker B motif; other site 585057008274 arginine finger; other site 585057008275 hypothetical protein; Provisional; Region: PRK10722 585057008276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 585057008277 HAMP domain; Region: HAMP; pfam00672 585057008278 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 585057008279 dimer interface [polypeptide binding]; other site 585057008280 phosphorylation site [posttranslational modification] 585057008281 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 585057008282 ATP binding site [chemical binding]; other site 585057008283 Mg2+ binding site [ion binding]; other site 585057008284 G-X-G motif; other site 585057008285 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 585057008286 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 585057008287 dimerization interface [polypeptide binding]; other site 585057008288 ATP binding site [chemical binding]; other site 585057008289 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 585057008290 dimerization interface [polypeptide binding]; other site 585057008291 ATP binding site [chemical binding]; other site 585057008292 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 585057008293 putative active site [active] 585057008294 catalytic triad [active] 585057008295 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 585057008296 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 585057008297 substrate binding pocket [chemical binding]; other site 585057008298 membrane-bound complex binding site; other site 585057008299 hinge residues; other site 585057008300 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 585057008301 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057008302 catalytic residue [active] 585057008303 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 585057008304 nucleoside/Zn binding site; other site 585057008305 dimer interface [polypeptide binding]; other site 585057008306 catalytic motif [active] 585057008307 hypothetical protein; Provisional; Region: PRK11590 585057008308 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 585057008309 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 585057008310 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 585057008311 putative active site [active] 585057008312 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 585057008313 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 585057008314 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 585057008315 active site 585057008316 hydrophilic channel; other site 585057008317 dimerization interface [polypeptide binding]; other site 585057008318 catalytic residues [active] 585057008319 active site lid [active] 585057008320 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 585057008321 Recombination protein O N terminal; Region: RecO_N; pfam11967 585057008322 Recombination protein O C terminal; Region: RecO_C; pfam02565 585057008323 GTPase Era; Reviewed; Region: era; PRK00089 585057008324 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 585057008325 G1 box; other site 585057008326 GTP/Mg2+ binding site [chemical binding]; other site 585057008327 Switch I region; other site 585057008328 G2 box; other site 585057008329 Switch II region; other site 585057008330 G3 box; other site 585057008331 G4 box; other site 585057008332 G5 box; other site 585057008333 KH domain; Region: KH_2; pfam07650 585057008334 ribonuclease III; Reviewed; Region: rnc; PRK00102 585057008335 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 585057008336 dimerization interface [polypeptide binding]; other site 585057008337 active site 585057008338 metal binding site [ion binding]; metal-binding site 585057008339 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 585057008340 dsRNA binding site [nucleotide binding]; other site 585057008341 signal peptidase I; Provisional; Region: PRK10861 585057008342 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 585057008343 Catalytic site [active] 585057008344 GTP-binding protein LepA; Provisional; Region: PRK05433 585057008345 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 585057008346 G1 box; other site 585057008347 putative GEF interaction site [polypeptide binding]; other site 585057008348 GTP/Mg2+ binding site [chemical binding]; other site 585057008349 Switch I region; other site 585057008350 G2 box; other site 585057008351 G3 box; other site 585057008352 Switch II region; other site 585057008353 G4 box; other site 585057008354 G5 box; other site 585057008355 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 585057008356 Elongation Factor G, domain II; Region: EFG_II; pfam14492 585057008357 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 585057008358 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 585057008359 SoxR reducing system protein RseC; Provisional; Region: PRK10862 585057008360 anti-sigma E factor; Provisional; Region: rseB; PRK09455 585057008361 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 585057008362 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 585057008363 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 585057008364 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 585057008365 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057008366 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 585057008367 DNA binding residues [nucleotide binding] 585057008368 L-aspartate oxidase; Provisional; Region: PRK09077 585057008369 L-aspartate oxidase; Provisional; Region: PRK06175 585057008370 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 585057008371 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 585057008372 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 585057008373 S-adenosylmethionine binding site [chemical binding]; other site 585057008374 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 585057008375 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 585057008376 ATP binding site [chemical binding]; other site 585057008377 Mg++ binding site [ion binding]; other site 585057008378 motif III; other site 585057008379 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 585057008380 nucleotide binding region [chemical binding]; other site 585057008381 ATP-binding site [chemical binding]; other site 585057008382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008383 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008384 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008385 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057008386 HTH-like domain; Region: HTH_21; pfam13276 585057008387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057008388 Integrase core domain; Region: rve; pfam00665 585057008389 Integrase core domain; Region: rve_2; pfam13333 585057008390 fragment of putative DNA-binding transcriptional regulator (part 2);Evidence 7 : Gene remnant; Product type pr : putative regulator 585057008391 fragment of putative DNA-binding transcriptional regulator (part 1);Evidence 7 : Gene remnant; Product type pr : putative regulator 585057008392 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 585057008393 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 585057008394 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 585057008395 ligand binding site [chemical binding]; other site 585057008396 active site 585057008397 UGI interface [polypeptide binding]; other site 585057008398 catalytic site [active] 585057008399 putative methyltransferase; Provisional; Region: PRK10864 585057008400 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 585057008401 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 585057008402 thioredoxin 2; Provisional; Region: PRK10996 585057008403 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 585057008404 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 585057008405 catalytic residues [active] 585057008406 Uncharacterized conserved protein [Function unknown]; Region: COG3148 585057008407 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 585057008408 CoA binding domain; Region: CoA_binding_2; pfam13380 585057008409 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 585057008410 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 585057008411 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 585057008412 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 585057008413 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 585057008414 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 585057008415 domain interface [polypeptide binding]; other site 585057008416 putative active site [active] 585057008417 catalytic site [active] 585057008418 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 585057008419 domain interface [polypeptide binding]; other site 585057008420 putative active site [active] 585057008421 catalytic site [active] 585057008422 lipoprotein; Provisional; Region: PRK10759 585057008423 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 585057008424 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057008425 putative substrate translocation pore; other site 585057008426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 585057008427 protein disaggregation chaperone; Provisional; Region: PRK10865 585057008428 Clp amino terminal domain; Region: Clp_N; pfam02861 585057008429 Clp amino terminal domain; Region: Clp_N; pfam02861 585057008430 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 585057008431 Walker A motif; other site 585057008432 ATP binding site [chemical binding]; other site 585057008433 Walker B motif; other site 585057008434 arginine finger; other site 585057008435 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 585057008436 Walker A motif; other site 585057008437 ATP binding site [chemical binding]; other site 585057008438 Walker B motif; other site 585057008439 arginine finger; other site 585057008440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 585057008441 hypothetical protein; Provisional; Region: PRK10723 585057008442 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 585057008443 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 585057008444 RNA binding surface [nucleotide binding]; other site 585057008445 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 585057008446 active site 585057008447 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 585057008448 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 585057008449 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057008450 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057008451 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057008452 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 585057008453 30S subunit binding site; other site 585057008454 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 585057008455 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 585057008456 Prephenate dehydratase; Region: PDT; pfam00800 585057008457 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 585057008458 putative L-Phe binding site [chemical binding]; other site 585057008459 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 585057008460 Chorismate mutase type II; Region: CM_2; cl00693 585057008461 prephenate dehydrogenase; Validated; Region: PRK08507 585057008462 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 585057008463 lipoprotein; Provisional; Region: PRK11443 585057008464 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 585057008465 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 585057008466 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057008467 metal binding site [ion binding]; metal-binding site 585057008468 active site 585057008469 I-site; other site 585057008470 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 585057008471 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057008472 ligand binding site [chemical binding]; other site 585057008473 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 585057008474 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 585057008475 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 585057008476 RimM N-terminal domain; Region: RimM; pfam01782 585057008477 PRC-barrel domain; Region: PRC; pfam05239 585057008478 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 585057008479 signal recognition particle protein; Provisional; Region: PRK10867 585057008480 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 585057008481 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 585057008482 P loop; other site 585057008483 GTP binding site [chemical binding]; other site 585057008484 Signal peptide binding domain; Region: SRP_SPB; pfam02978 585057008485 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 585057008486 hypothetical protein; Provisional; Region: PRK11573 585057008487 Domain of unknown function DUF21; Region: DUF21; pfam01595 585057008488 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 585057008489 Transporter associated domain; Region: CorC_HlyC; smart01091 585057008490 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; cl19511 585057008491 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 585057008492 dimer interface [polypeptide binding]; other site 585057008493 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 585057008494 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 585057008495 recombination and repair protein; Provisional; Region: PRK10869 585057008496 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 585057008497 Walker A/P-loop; other site 585057008498 ATP binding site [chemical binding]; other site 585057008499 Q-loop/lid; other site 585057008500 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 585057008501 Q-loop/lid; other site 585057008502 ABC transporter signature motif; other site 585057008503 Walker B; other site 585057008504 D-loop; other site 585057008505 H-loop/switch region; other site 585057008506 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 585057008507 hypothetical protein; Validated; Region: PRK01777 585057008508 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 585057008509 putative coenzyme Q binding site [chemical binding]; other site 585057008510 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 585057008511 SmpB-tmRNA interface; other site 585057008512 N-terminal domain of type IIE restriction endonuclease EcoRII and similar proteins; Region: EcoRII_N; cd10016 585057008513 DNA binding site [nucleotide binding] 585057008514 EcoRII C terminal; Region: EcoRII-C; pfam09019 585057008515 DNA cytosine methylase; Provisional; Region: PRK10458 585057008516 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 585057008517 cofactor binding site; other site 585057008518 DNA binding site [nucleotide binding] 585057008519 substrate interaction site [chemical binding]; other site 585057008520 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 585057008521 GIY-YIG motif/motif A; other site 585057008522 putative active site [active] 585057008523 putative metal binding site [ion binding]; other site 585057008524 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 585057008525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 585057008526 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 585057008527 Phage protein GP46; Region: GP46; pfam07409 585057008528 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; pfam06890 585057008529 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 585057008530 DNA circularisation protein N-terminus; Region: DNA_circ_N; pfam07157 585057008531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 585057008532 putative transposase OrfB; Reviewed; Region: PHA02517 585057008533 HTH-like domain; Region: HTH_21; pfam13276 585057008534 Integrase core domain; Region: rve; pfam00665 585057008535 Integrase core domain; Region: rve_3; pfam13683 585057008536 Transposase; Region: HTH_Tnp_1; cl17663 585057008537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008538 fragment of adhesin-like autotransporter (partial);Evidence 7 : Gene remnant; Product type t : transporter 585057008539 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 585057008540 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 585057008541 catalytic residues [active] 585057008542 fragment of conserved hypothetical protein (part 2);Evidence 4 : Homologs of previously reported genes of unknown function 585057008543 fragment of conserved hypothetical protein (part 1);Evidence 4 : Homologs of previously reported genes of unknown function 585057008544 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 585057008545 active site 585057008546 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 585057008547 Ca binding site [ion binding]; other site 585057008548 catalytic site [active] 585057008549 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 585057008550 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 585057008551 substrate binding pocket [chemical binding]; other site 585057008552 active site 585057008553 iron coordination sites [ion binding]; other site 585057008554 hydroxyglutarate oxidase; Provisional; Region: PRK11728 585057008555 Predicted dehydrogenase [General function prediction only]; Region: COG0579 585057008556 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 585057008557 tetramerization interface [polypeptide binding]; other site 585057008558 NAD(P) binding site [chemical binding]; other site 585057008559 catalytic residues [active] 585057008560 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 585057008561 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057008562 inhibitor-cofactor binding pocket; inhibition site 585057008563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057008564 catalytic residue [active] 585057008565 HTH-like domain; Region: HTH_21; pfam13276 585057008566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057008567 Integrase core domain; Region: rve; pfam00665 585057008568 Integrase core domain; Region: rve_2; pfam13333 585057008569 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008570 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008571 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008572 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057008573 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 585057008574 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057008575 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 585057008576 helix_turn_helix gluconate operon transcriptional repressor; Region: HTH_GNTR; smart00345 585057008577 DNA-binding site [nucleotide binding]; DNA binding site 585057008578 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057008579 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 585057008580 bacterial OsmY and nodulation domain; Region: BON; smart00749 585057008581 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057008582 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 585057008583 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 585057008584 dimerization interface [polypeptide binding]; other site 585057008585 putative DNA binding site [nucleotide binding]; other site 585057008586 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057008587 putative Zn2+ binding site [ion binding]; other site 585057008588 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 585057008589 active site residue [active] 585057008590 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 585057008591 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 585057008592 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 585057008593 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 585057008594 hypothetical protein; Provisional; Region: PRK10556 585057008595 hypothetical protein; Provisional; Region: PRK10132 585057008596 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 585057008597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057008598 DNA-binding site [nucleotide binding]; DNA binding site 585057008599 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 585057008600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057008601 homodimer interface [polypeptide binding]; other site 585057008602 catalytic residue [active] 585057008603 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 585057008604 Uncharacterized conserved protein [Function unknown]; Region: COG2128 585057008605 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 585057008606 catalytic residues [active] 585057008607 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 585057008608 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 585057008609 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 585057008610 Class I ribonucleotide reductase; Region: RNR_I; cd01679 585057008611 active site 585057008612 dimer interface [polypeptide binding]; other site 585057008613 catalytic residues [active] 585057008614 effector binding site; other site 585057008615 R2 peptide binding site; other site 585057008616 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 585057008617 dimer interface [polypeptide binding]; other site 585057008618 putative radical transfer pathway; other site 585057008619 diiron center [ion binding]; other site 585057008620 tyrosyl radical; other site 585057008621 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 585057008622 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 585057008623 Walker A/P-loop; other site 585057008624 ATP binding site [chemical binding]; other site 585057008625 Q-loop/lid; other site 585057008626 ABC transporter signature motif; other site 585057008627 Walker B; other site 585057008628 D-loop; other site 585057008629 H-loop/switch region; other site 585057008630 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 585057008631 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 585057008632 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 585057008633 dimer interface [polypeptide binding]; other site 585057008634 conserved gate region; other site 585057008635 putative PBP binding loops; other site 585057008636 ABC-ATPase subunit interface; other site 585057008637 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 585057008638 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 585057008639 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057008640 putative substrate translocation pore; other site 585057008641 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 585057008642 putative L-valine exporter; Provisional; Region: PRK10408 585057008643 transcriptional repressor MprA; Provisional; Region: PRK10870 585057008644 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057008645 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057008646 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057008647 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057008648 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 585057008649 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057008650 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057008651 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 585057008652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057008653 putative substrate translocation pore; other site 585057008654 S-ribosylhomocysteinase; Provisional; Region: PRK02260 585057008655 glutamate--cysteine ligase; Provisional; Region: PRK02107 585057008656 Predicted membrane protein [Function unknown]; Region: COG1238 585057008657 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 585057008658 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 585057008659 active site 585057008660 motif I; other site 585057008661 motif II; other site 585057008662 carbon storage regulator; Provisional; Region: PRK01712 585057008663 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 585057008664 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 585057008665 motif 1; other site 585057008666 active site 585057008667 motif 2; other site 585057008668 motif 3; other site 585057008669 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 585057008670 DHHA1 domain; Region: DHHA1; pfam02272 585057008671 recombination regulator RecX; Reviewed; Region: recX; PRK00117 585057008672 recombinase A; Provisional; Region: recA; PRK09354 585057008673 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 585057008674 hexamer interface [polypeptide binding]; other site 585057008675 Walker A motif; other site 585057008676 ATP binding site [chemical binding]; other site 585057008677 Walker B motif; other site 585057008678 hypothetical protein; Validated; Region: PRK03661 585057008679 murein hydrolase B; Provisional; Region: PRK10760 585057008680 lytic murein transglycosylase B; Region: MltB; TIGR02282 585057008681 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 585057008682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057008683 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 585057008684 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 585057008685 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 585057008686 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 585057008687 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 585057008688 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 585057008689 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 585057008690 putative NAD(P) binding site [chemical binding]; other site 585057008691 active site 585057008692 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 585057008693 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 585057008694 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057008695 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057008696 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 585057008697 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 585057008698 putative active site [active] 585057008699 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 585057008700 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 585057008701 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 585057008702 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 585057008703 Walker A motif; other site 585057008704 ATP binding site [chemical binding]; other site 585057008705 Walker B motif; other site 585057008706 arginine finger; other site 585057008707 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 585057008708 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 585057008709 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 585057008710 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 585057008711 iron binding site [ion binding]; other site 585057008712 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 585057008713 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057008714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057008715 Acylphosphatase; Region: Acylphosphatase; pfam00708 585057008716 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 585057008717 HypF finger; Region: zf-HYPF; pfam07503 585057008718 HypF finger; Region: zf-HYPF; pfam07503 585057008719 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 585057008720 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 585057008721 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 585057008722 Transcriptional regulators [Transcription]; Region: PurR; COG1609 585057008723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057008724 DNA binding site [nucleotide binding] 585057008725 domain linker motif; other site 585057008726 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 585057008727 dimerization interface (closed form) [polypeptide binding]; other site 585057008728 ligand binding site [chemical binding]; other site 585057008729 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 585057008730 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 585057008731 active site turn [active] 585057008732 phosphorylation site [posttranslational modification] 585057008733 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 585057008734 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 585057008735 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 585057008736 HTH-like domain; Region: HTH_21; pfam13276 585057008737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057008738 Integrase core domain; Region: rve; pfam00665 585057008739 Integrase core domain; Region: rve_2; pfam13333 585057008740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008741 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008742 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057008743 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057008744 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 585057008745 nickel binding site [ion binding]; other site 585057008746 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 585057008747 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 585057008748 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 585057008749 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 585057008750 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 585057008751 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 585057008752 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 585057008753 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 585057008754 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 585057008755 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 585057008756 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 585057008757 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 585057008758 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 585057008759 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 585057008760 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 585057008761 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 585057008762 hydrogenase assembly chaperone; Provisional; Region: PRK10409 585057008763 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 585057008764 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 585057008765 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 585057008766 dimerization interface [polypeptide binding]; other site 585057008767 ATP binding site [chemical binding]; other site 585057008768 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 585057008769 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 585057008770 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 585057008771 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 585057008772 Walker A motif; other site 585057008773 ATP binding site [chemical binding]; other site 585057008774 Walker B motif; other site 585057008775 arginine finger; other site 585057008776 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 585057008777 TOBE domain; Region: TOBE; cl01440 585057008778 TOBE domain; Region: TOBE; cl01440 585057008779 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 585057008780 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 585057008781 MutS domain I; Region: MutS_I; pfam01624 585057008782 MutS domain II; Region: MutS_II; pfam05188 585057008783 MutS domain III; Region: MutS_III; pfam05192 585057008784 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 585057008785 Walker A/P-loop; other site 585057008786 ATP binding site [chemical binding]; other site 585057008787 Q-loop/lid; other site 585057008788 ABC transporter signature motif; other site 585057008789 Walker B; other site 585057008790 D-loop; other site 585057008791 H-loop/switch region; other site 585057008792 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 585057008793 active site 585057008794 metal binding site [ion binding]; metal-binding site 585057008795 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 585057008796 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 585057008797 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 585057008798 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057008799 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 585057008800 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 585057008801 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 585057008802 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057008803 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 585057008804 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 585057008805 DNA binding residues [nucleotide binding] 585057008806 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 585057008807 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057008808 Peptidase family M23; Region: Peptidase_M23; pfam01551 585057008809 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 585057008810 S-adenosylmethionine binding site [chemical binding]; other site 585057008811 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 585057008812 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 585057008813 Permutation of conserved domain; other site 585057008814 active site 585057008815 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 585057008816 homotrimer interaction site [polypeptide binding]; other site 585057008817 zinc binding site [ion binding]; other site 585057008818 CDP-binding sites; other site 585057008819 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 585057008820 substrate binding site; other site 585057008821 dimer interface; other site 585057008822 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 585057008823 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 585057008824 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 585057008825 ligand-binding site [chemical binding]; other site 585057008826 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 585057008827 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 585057008828 CysD dimerization site [polypeptide binding]; other site 585057008829 G1 box; other site 585057008830 putative GEF interaction site [polypeptide binding]; other site 585057008831 GTP/Mg2+ binding site [chemical binding]; other site 585057008832 Switch I region; other site 585057008833 G2 box; other site 585057008834 G3 box; other site 585057008835 Switch II region; other site 585057008836 G4 box; other site 585057008837 G5 box; other site 585057008838 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 585057008839 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 585057008840 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 585057008841 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 585057008842 Active Sites [active] 585057008843 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 585057008844 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 585057008845 metal binding site [ion binding]; metal-binding site 585057008846 Hok/gef family; Region: HOK_GEF; pfam01848 585057008847 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 585057008848 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 585057008849 Active Sites [active] 585057008850 sulfite reductase subunit beta; Provisional; Region: PRK13504 585057008851 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 585057008852 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 585057008853 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 585057008854 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 585057008855 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 585057008856 Flavodoxin; Region: Flavodoxin_1; pfam00258 585057008857 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 585057008858 FAD binding pocket [chemical binding]; other site 585057008859 FAD binding motif [chemical binding]; other site 585057008860 catalytic residues [active] 585057008861 NAD binding pocket [chemical binding]; other site 585057008862 phosphate binding motif [ion binding]; other site 585057008863 beta-alpha-beta structure motif; other site 585057008864 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 585057008865 active site 585057008866 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057008867 putative oxidoreductase FixC; Provisional; Region: PRK10157 585057008868 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 585057008869 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 585057008870 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 585057008871 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 585057008872 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 585057008873 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 585057008874 Ligand Binding Site [chemical binding]; other site 585057008875 benzoate transport; Region: 2A0115; TIGR00895 585057008876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057008877 putative substrate translocation pore; other site 585057008878 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 585057008879 FAD binding domain; Region: FAD_binding_4; pfam01565 585057008880 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 585057008881 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 585057008882 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 585057008883 NADP binding site [chemical binding]; other site 585057008884 homodimer interface [polypeptide binding]; other site 585057008885 active site 585057008886 fragment of putative transporter (part 1);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057008887 Integrase core domain; Region: rve; pfam00665 585057008888 Integrase core domain; Region: rve_3; pfam13683 585057008889 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057008890 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 585057008891 putative active site [active] 585057008892 putative NTP binding site [chemical binding]; other site 585057008893 putative nucleic acid binding site [nucleotide binding]; other site 585057008894 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057008895 HTH-like domain; Region: HTH_21; pfam13276 585057008896 Transposase; Region: HTH_Tnp_1; cl17663 585057008897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057008898 fragment of putative transporter (part 2);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057008899 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 585057008900 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 585057008901 nucleotide binding site [chemical binding]; other site 585057008902 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 585057008903 putative substrate binding site [chemical binding]; other site 585057008904 putative ATP binding site [chemical binding]; other site 585057008905 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 585057008906 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 585057008907 maltoporin; Provisional; Region: lamB; PRK09360 585057008908 trimer interface; other site 585057008909 sugar binding site [chemical binding]; other site 585057008910 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 585057008911 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 585057008912 active site turn [active] 585057008913 phosphorylation site [posttranslational modification] 585057008914 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 585057008915 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 585057008916 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 585057008917 substrate binding [chemical binding]; other site 585057008918 active site 585057008919 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 585057008920 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 585057008921 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057008922 DNA binding site [nucleotide binding] 585057008923 domain linker motif; other site 585057008924 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 585057008925 dimerization interface [polypeptide binding]; other site 585057008926 ligand binding site [chemical binding]; other site 585057008927 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 585057008928 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 585057008929 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 585057008930 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057008931 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057008932 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057008933 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057008934 Uncharacterized conserved protein [Function unknown]; Region: COG1912 585057008935 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 585057008936 Part of AAA domain; Region: AAA_19; pfam13245 585057008937 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 585057008938 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 585057008939 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 585057008940 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 585057008941 motif II; other site 585057008942 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 585057008943 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 585057008944 active site 585057008945 Int/Topo IB signature motif; other site 585057008946 hypothetical protein; Provisional; Region: PRK10963 585057008947 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 585057008948 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 585057008949 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 585057008950 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 585057008951 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 585057008952 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 585057008953 putative iron binding site [ion binding]; other site 585057008954 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 585057008955 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 585057008956 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 585057008957 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 585057008958 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 585057008959 domain interfaces; other site 585057008960 active site 585057008961 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 585057008962 active site 585057008963 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 585057008964 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 585057008965 HemY protein N-terminus; Region: HemY_N; pfam07219 585057008966 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 585057008967 Sulfatase; Region: Sulfatase; pfam00884 585057008968 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 585057008969 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 585057008970 FeS/SAM binding site; other site 585057008971 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 585057008972 putative transport protein YifK; Provisional; Region: PRK10746 585057008973 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 585057008974 putative common antigen polymerase; Provisional; Region: PRK02975 585057008975 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 585057008976 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 585057008977 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 585057008978 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 585057008979 inhibitor-cofactor binding pocket; inhibition site 585057008980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057008981 catalytic residue [active] 585057008982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057008983 Coenzyme A binding pocket [chemical binding]; other site 585057008984 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 585057008985 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 585057008986 substrate binding site; other site 585057008987 tetramer interface; other site 585057008988 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 585057008989 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 585057008990 NAD binding site [chemical binding]; other site 585057008991 substrate binding site [chemical binding]; other site 585057008992 homodimer interface [polypeptide binding]; other site 585057008993 active site 585057008994 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 585057008995 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 585057008996 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 585057008997 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 585057008998 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 585057008999 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 585057009000 active site 585057009001 homodimer interface [polypeptide binding]; other site 585057009002 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 585057009003 Chain length determinant protein; Region: Wzz; pfam02706 585057009004 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 585057009005 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 585057009006 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 585057009007 Mg++ binding site [ion binding]; other site 585057009008 putative catalytic motif [active] 585057009009 substrate binding site [chemical binding]; other site 585057009010 transcription termination factor Rho; Provisional; Region: rho; PRK09376 585057009011 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 585057009012 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 585057009013 RNA binding site [nucleotide binding]; other site 585057009014 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 585057009015 multimer interface [polypeptide binding]; other site 585057009016 Walker A motif; other site 585057009017 ATP binding site [chemical binding]; other site 585057009018 Walker B motif; other site 585057009019 putative rho operon leader peptide; Provisional; Region: PRK09979 585057009020 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 585057009021 catalytic residues [active] 585057009022 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 585057009023 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 585057009024 ATP binding site [chemical binding]; other site 585057009025 Mg++ binding site [ion binding]; other site 585057009026 motif III; other site 585057009027 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 585057009028 nucleotide binding region [chemical binding]; other site 585057009029 ATP-binding site [chemical binding]; other site 585057009030 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 585057009031 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 585057009032 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 585057009033 Part of AAA domain; Region: AAA_19; pfam13245 585057009034 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 585057009035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 585057009036 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 585057009037 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 585057009038 ketol-acid reductoisomerase; Validated; Region: PRK05225 585057009039 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 585057009040 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 585057009041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009042 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 585057009043 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 585057009044 putative dimerization interface [polypeptide binding]; other site 585057009045 threonine dehydratase; Reviewed; Region: PRK09224 585057009046 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 585057009047 tetramer interface [polypeptide binding]; other site 585057009048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057009049 catalytic residue [active] 585057009050 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 585057009051 putative Ile/Val binding site [chemical binding]; other site 585057009052 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 585057009053 putative Ile/Val binding site [chemical binding]; other site 585057009054 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 585057009055 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 585057009056 homodimer interface [polypeptide binding]; other site 585057009057 substrate-cofactor binding pocket; other site 585057009058 catalytic residue [active] 585057009059 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 585057009060 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 585057009061 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 585057009062 PYR/PP interface [polypeptide binding]; other site 585057009063 dimer interface [polypeptide binding]; other site 585057009064 TPP binding site [chemical binding]; other site 585057009065 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 585057009066 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 585057009067 TPP-binding site [chemical binding]; other site 585057009068 dimer interface [polypeptide binding]; other site 585057009069 ilvG operon leader peptide; Provisional; Region: PRK10424 585057009070 putative ATP-dependent protease; Provisional; Region: PRK09862 585057009071 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 585057009072 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 585057009073 Walker A motif; other site 585057009074 ATP binding site [chemical binding]; other site 585057009075 Walker B motif; other site 585057009076 arginine finger; other site 585057009077 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 585057009078 hypothetical protein; Provisional; Region: PRK11027 585057009079 transcriptional regulator HdfR; Provisional; Region: PRK03601 585057009080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009081 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 585057009082 dimerization interface [polypeptide binding]; other site 585057009083 glutamate racemase; Provisional; Region: PRK00865 585057009084 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 585057009085 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 585057009086 N-terminal plug; other site 585057009087 ligand-binding site [chemical binding]; other site 585057009088 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 585057009089 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 585057009090 S-adenosylmethionine binding site [chemical binding]; other site 585057009091 hypothetical protein; Provisional; Region: PRK11056 585057009092 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 585057009093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057009094 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 585057009095 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057009096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057009097 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 585057009098 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 585057009099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009100 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 585057009101 dimerization interface [polypeptide binding]; other site 585057009102 argininosuccinate lyase; Provisional; Region: PRK04833 585057009103 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 585057009104 active sites [active] 585057009105 tetramer interface [polypeptide binding]; other site 585057009106 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 585057009107 nucleotide binding site [chemical binding]; other site 585057009108 N-acetyl-L-glutamate binding site [chemical binding]; other site 585057009109 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 585057009110 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 585057009111 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 585057009112 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 585057009113 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 585057009114 metal binding site [ion binding]; metal-binding site 585057009115 putative dimer interface [polypeptide binding]; other site 585057009116 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 585057009117 hypothetical protein; Provisional; Region: PRK10649 585057009118 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 585057009119 Sulfatase; Region: Sulfatase; pfam00884 585057009120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009121 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057009122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009123 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 585057009124 active site 585057009125 P-loop; other site 585057009126 phosphorylation site [posttranslational modification] 585057009127 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 585057009128 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 585057009129 FeS/SAM binding site; other site 585057009130 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 585057009131 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 585057009132 dimer interface [polypeptide binding]; other site 585057009133 active site 585057009134 glycine loop; other site 585057009135 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 585057009136 active site 585057009137 P-loop; other site 585057009138 phosphorylation site [posttranslational modification] 585057009139 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 585057009140 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 585057009141 dimerization domain swap beta strand [polypeptide binding]; other site 585057009142 regulatory protein interface [polypeptide binding]; other site 585057009143 active site 585057009144 regulatory phosphorylation site [posttranslational modification]; other site 585057009145 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 585057009146 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 585057009147 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585057009148 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 585057009149 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 585057009150 active site 585057009151 phosphorylation site [posttranslational modification] 585057009152 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 585057009153 active site 585057009154 intersubunit interactions; other site 585057009155 catalytic residue [active] 585057009156 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 585057009157 dimer interface [polypeptide binding]; other site 585057009158 active site 585057009159 metal binding site [ion binding]; metal-binding site 585057009160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 585057009161 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 585057009162 EamA-like transporter family; Region: EamA; pfam00892 585057009163 EamA-like transporter family; Region: EamA; pfam00892 585057009164 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 585057009165 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 585057009166 heme binding site [chemical binding]; other site 585057009167 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 585057009168 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 585057009169 FAD binding site [chemical binding]; other site 585057009170 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 585057009171 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 585057009172 active site 585057009173 metal binding site [ion binding]; metal-binding site 585057009174 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 585057009175 Insertion element protein; Region: Ins_element1; pfam03811 585057009176 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 585057009177 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 585057009178 active site 585057009179 metal binding site [ion binding]; metal-binding site 585057009180 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 585057009181 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 585057009182 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 585057009183 active site 585057009184 metal binding site [ion binding]; metal-binding site 585057009185 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 585057009186 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 585057009187 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 585057009188 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 585057009189 putative catalytic residues [active] 585057009190 putative nucleotide binding site [chemical binding]; other site 585057009191 putative aspartate binding site [chemical binding]; other site 585057009192 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 585057009193 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 585057009194 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 585057009195 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 585057009196 homodimer interface [polypeptide binding]; other site 585057009197 substrate-cofactor binding pocket; other site 585057009198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057009199 catalytic residue [active] 585057009200 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 585057009201 dimerization interface [polypeptide binding]; other site 585057009202 DNA binding site [nucleotide binding] 585057009203 corepressor binding sites; other site 585057009204 hypothetical protein; Provisional; Region: PRK10030 585057009205 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 585057009206 primosome assembly protein PriA; Validated; Region: PRK05580 585057009207 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 585057009208 ATP binding site [chemical binding]; other site 585057009209 putative Mg++ binding site [ion binding]; other site 585057009210 helicase superfamily c-terminal domain; Region: HELICc; smart00490 585057009211 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057009212 DNA binding site [nucleotide binding] 585057009213 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 585057009214 domain linker motif; other site 585057009215 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 585057009216 dimerization interface [polypeptide binding]; other site 585057009217 ligand binding site [chemical binding]; other site 585057009218 essential cell division protein FtsN; Provisional; Region: PRK10927 585057009219 Sporulation related domain; Region: SPOR; pfam05036 585057009220 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 585057009221 active site 585057009222 HslU subunit interaction site [polypeptide binding]; other site 585057009223 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 585057009224 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 585057009225 Walker A motif; other site 585057009226 ATP binding site [chemical binding]; other site 585057009227 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 585057009228 Walker B motif; other site 585057009229 arginine finger; other site 585057009230 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 585057009231 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 585057009232 putative active site [active] 585057009233 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 585057009234 septal ring assembly protein ZapB; Provisional; Region: PRK15422 585057009235 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 585057009236 amphipathic channel; other site 585057009237 Asn-Pro-Ala signature motifs; other site 585057009238 glycerol kinase; Provisional; Region: glpK; PRK00047 585057009239 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 585057009240 N- and C-terminal domain interface [polypeptide binding]; other site 585057009241 active site 585057009242 MgATP binding site [chemical binding]; other site 585057009243 catalytic site [active] 585057009244 metal binding site [ion binding]; metal-binding site 585057009245 glycerol binding site [chemical binding]; other site 585057009246 homotetramer interface [polypeptide binding]; other site 585057009247 homodimer interface [polypeptide binding]; other site 585057009248 FBP binding site [chemical binding]; other site 585057009249 protein IIAGlc interface [polypeptide binding]; other site 585057009250 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 585057009251 putative active site [active] 585057009252 ferredoxin-NADP reductase; Provisional; Region: PRK10926 585057009253 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 585057009254 FAD binding pocket [chemical binding]; other site 585057009255 FAD binding motif [chemical binding]; other site 585057009256 phosphate binding motif [ion binding]; other site 585057009257 beta-alpha-beta structure motif; other site 585057009258 NAD binding pocket [chemical binding]; other site 585057009259 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 585057009260 Ligand Binding Site [chemical binding]; other site 585057009261 hypothetical protein; Provisional; Region: PRK09981 585057009262 Predicted membrane protein [Function unknown]; Region: COG3152 585057009263 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 585057009264 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 585057009265 substrate binding site [chemical binding]; other site 585057009266 dimer interface [polypeptide binding]; other site 585057009267 catalytic triad [active] 585057009268 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 585057009269 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 585057009270 substrate binding pocket [chemical binding]; other site 585057009271 membrane-bound complex binding site; other site 585057009272 hinge residues; other site 585057009273 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 585057009274 active site 585057009275 ADP/pyrophosphate binding site [chemical binding]; other site 585057009276 dimerization interface [polypeptide binding]; other site 585057009277 allosteric effector site; other site 585057009278 fructose-1,6-bisphosphate binding site; other site 585057009279 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 585057009280 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 585057009281 dimer interface [polypeptide binding]; other site 585057009282 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 585057009283 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 585057009284 active site 585057009285 intermolecular recognition site; other site 585057009286 dimerization interface [polypeptide binding]; other site 585057009287 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 585057009288 DNA binding site [nucleotide binding] 585057009289 two-component sensor protein; Provisional; Region: cpxA; PRK09470 585057009290 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 585057009291 dimerization interface [polypeptide binding]; other site 585057009292 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 585057009293 dimer interface [polypeptide binding]; other site 585057009294 phosphorylation site [posttranslational modification] 585057009295 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 585057009296 ATP binding site [chemical binding]; other site 585057009297 Mg2+ binding site [ion binding]; other site 585057009298 G-X-G motif; other site 585057009299 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 585057009300 MOSC domain; Region: MOSC; pfam03473 585057009301 3-alpha domain; Region: 3-alpha; pfam03475 585057009302 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 585057009303 superoxide dismutase; Provisional; Region: PRK10925 585057009304 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 585057009305 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 585057009306 Sugar transport protein; Region: Sugar_transport; cl19288 585057009307 transcriptional activator RhaR; Provisional; Region: PRK13500 585057009308 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057009309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009311 transcriptional activator RhaS; Provisional; Region: PRK13503 585057009312 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057009313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057009315 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 585057009316 N- and C-terminal domain interface [polypeptide binding]; other site 585057009317 active site 585057009318 putative catalytic site [active] 585057009319 metal binding site [ion binding]; metal-binding site 585057009320 ATP binding site [chemical binding]; other site 585057009321 rhamnulokinase; Provisional; Region: rhaB; PRK10640 585057009322 carbohydrate binding site [chemical binding]; other site 585057009323 L-rhamnose isomerase; Provisional; Region: PRK01076 585057009324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057009325 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009326 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009327 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057009328 HTH-like domain; Region: HTH_21; pfam13276 585057009329 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057009330 Integrase core domain; Region: rve; pfam00665 585057009331 Integrase core domain; Region: rve_2; pfam13333 585057009332 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 585057009333 intersubunit interface [polypeptide binding]; other site 585057009334 active site 585057009335 Zn2+ binding site [ion binding]; other site 585057009336 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 585057009337 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 585057009338 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 585057009339 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 585057009340 active site 585057009341 phosphorylation site [posttranslational modification] 585057009342 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 585057009343 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 585057009344 active site 585057009345 P-loop; other site 585057009346 phosphorylation site [posttranslational modification] 585057009347 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 585057009348 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 585057009349 oligomer interface [polypeptide binding]; other site 585057009350 active site 585057009351 metal binding site [ion binding]; metal-binding site 585057009352 putative frv operon regulatory protein; Provisional; Region: PRK09863 585057009353 HTH domain; Region: HTH_11; pfam08279 585057009354 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 585057009355 active site 585057009356 phosphorylation site [posttranslational modification] 585057009357 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 585057009358 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 585057009359 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 585057009360 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 585057009361 [4Fe-4S] binding site [ion binding]; other site 585057009362 molybdopterin cofactor binding site; other site 585057009363 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 585057009364 molybdopterin cofactor binding site; other site 585057009365 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 585057009366 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057009367 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 585057009368 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 585057009369 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 585057009370 LexA regulated protein; Provisional; Region: PRK11675 585057009371 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 585057009372 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057009373 Coenzyme A binding pocket [chemical binding]; other site 585057009374 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 585057009375 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 585057009376 putative active site [active] 585057009377 dimerization interface [polypeptide binding]; other site 585057009378 putative tRNAtyr binding site [nucleotide binding]; other site 585057009379 hypothetical protein; Reviewed; Region: PRK01637 585057009380 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 585057009381 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 585057009382 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 585057009383 motif II; other site 585057009384 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057009385 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 585057009386 putative DNA binding site [nucleotide binding]; other site 585057009387 putative Zn2+ binding site [ion binding]; other site 585057009388 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057009389 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 585057009390 substrate binding site [chemical binding]; other site 585057009391 ATP binding site [chemical binding]; other site 585057009392 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 585057009393 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 585057009394 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 585057009395 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 585057009396 catalytic residue [active] 585057009397 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 585057009398 dimerization interface [polypeptide binding]; other site 585057009399 putative active cleft [active] 585057009400 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 585057009401 active site 585057009402 catalytic residues [active] 585057009403 alpha-glucosidase; Provisional; Region: PRK10426 585057009404 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 585057009405 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 585057009406 putative active site [active] 585057009407 putative catalytic site [active] 585057009408 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 585057009409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009410 putative substrate translocation pore; other site 585057009411 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 585057009412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009413 putative substrate translocation pore; other site 585057009414 outer membrane porin L; Provisional; Region: ompL; PRK09980 585057009415 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009416 putative substrate translocation pore; other site 585057009417 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 585057009418 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 585057009419 transcriptional regulator protein; Region: phnR; TIGR03337 585057009420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057009421 DNA-binding site [nucleotide binding]; DNA binding site 585057009422 UTRA domain; Region: UTRA; pfam07702 585057009423 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057009424 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057009425 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057009426 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 585057009427 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 585057009428 G1 box; other site 585057009429 putative GEF interaction site [polypeptide binding]; other site 585057009430 GTP/Mg2+ binding site [chemical binding]; other site 585057009431 Switch I region; other site 585057009432 G2 box; other site 585057009433 G3 box; other site 585057009434 Switch II region; other site 585057009435 G4 box; other site 585057009436 G5 box; other site 585057009437 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 585057009438 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 585057009439 glutamine synthetase; Provisional; Region: glnA; PRK09469 585057009440 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 585057009441 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 585057009442 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 585057009443 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 585057009444 putative active site [active] 585057009445 heme pocket [chemical binding]; other site 585057009446 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 585057009447 dimer interface [polypeptide binding]; other site 585057009448 phosphorylation site [posttranslational modification] 585057009449 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 585057009450 ATP binding site [chemical binding]; other site 585057009451 Mg2+ binding site [ion binding]; other site 585057009452 G-X-G motif; other site 585057009453 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 585057009454 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 585057009455 active site 585057009456 phosphorylation site [posttranslational modification] 585057009457 intermolecular recognition site; other site 585057009458 dimerization interface [polypeptide binding]; other site 585057009459 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 585057009460 Walker A motif; other site 585057009461 ATP binding site [chemical binding]; other site 585057009462 Walker B motif; other site 585057009463 arginine finger; other site 585057009464 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057009465 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 585057009466 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 585057009467 FeS/SAM binding site; other site 585057009468 HemN C-terminal domain; Region: HemN_C; pfam06969 585057009469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 585057009470 Predicted GTPase [General function prediction only]; Region: COG0218 585057009471 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 585057009472 G1 box; other site 585057009473 GTP/Mg2+ binding site [chemical binding]; other site 585057009474 Switch I region; other site 585057009475 G2 box; other site 585057009476 G3 box; other site 585057009477 Switch II region; other site 585057009478 G4 box; other site 585057009479 G5 box; other site 585057009480 DNA polymerase I; Provisional; Region: PRK05755 585057009481 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 585057009482 active site 585057009483 metal binding site 1 [ion binding]; metal-binding site 585057009484 putative 5' ssDNA interaction site; other site 585057009485 metal binding site 3; metal-binding site 585057009486 metal binding site 2 [ion binding]; metal-binding site 585057009487 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 585057009488 putative DNA binding site [nucleotide binding]; other site 585057009489 putative metal binding site [ion binding]; other site 585057009490 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 585057009491 active site 585057009492 catalytic site [active] 585057009493 substrate binding site [chemical binding]; other site 585057009494 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 585057009495 active site 585057009496 DNA binding site [nucleotide binding] 585057009497 catalytic site [active] 585057009498 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 585057009499 putative acyl-acceptor binding pocket; other site 585057009500 hypothetical protein; Provisional; Region: PRK11367 585057009501 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 585057009502 catalytic residues [active] 585057009503 hinge region; other site 585057009504 alpha helical domain; other site 585057009505 serine/threonine protein kinase; Provisional; Region: PRK11768 585057009506 Phosphotransferase enzyme family; Region: APH; pfam01636 585057009507 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 585057009508 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 585057009509 GTP binding site; other site 585057009510 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 585057009511 Walker A motif; other site 585057009512 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 585057009513 potassium transporter; Provisional; Region: PRK10750 585057009514 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 585057009515 hypothetical protein; Provisional; Region: PRK11568 585057009516 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 585057009517 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 585057009518 proline dipeptidase; Provisional; Region: PRK13607 585057009519 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 585057009520 active site 585057009521 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 585057009522 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 585057009523 substrate binding site [chemical binding]; other site 585057009524 oxyanion hole (OAH) forming residues; other site 585057009525 trimer interface [polypeptide binding]; other site 585057009526 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 585057009527 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 585057009528 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 585057009529 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 585057009530 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 585057009531 dimer interface [polypeptide binding]; other site 585057009532 active site 585057009533 HTH-like domain; Region: HTH_21; pfam13276 585057009534 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057009535 Integrase core domain; Region: rve; pfam00665 585057009536 Integrase core domain; Region: rve_2; pfam13333 585057009537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057009538 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009539 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009540 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057009541 FMN reductase; Validated; Region: fre; PRK08051 585057009542 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 585057009543 FAD binding pocket [chemical binding]; other site 585057009544 FAD binding motif [chemical binding]; other site 585057009545 phosphate binding motif [ion binding]; other site 585057009546 beta-alpha-beta structure motif; other site 585057009547 NAD binding pocket [chemical binding]; other site 585057009548 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 585057009549 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 585057009550 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 585057009551 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 585057009552 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 585057009553 active site 585057009554 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 585057009555 sec-independent translocase; Provisional; Region: PRK01770 585057009556 sec-independent translocase; Provisional; Region: tatB; PRK00404 585057009557 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 585057009558 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 585057009559 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 585057009560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 585057009561 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 585057009562 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 585057009563 S-adenosylmethionine binding site [chemical binding]; other site 585057009564 DNA recombination protein RmuC; Provisional; Region: PRK10361 585057009565 RmuC family; Region: RmuC; pfam02646 585057009566 Transcriptional regulator [Transcription]; Region: IclR; COG1414 585057009567 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 585057009568 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057009569 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 585057009570 phospho acidic carbohydrate aldolase (fragment);Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 585057009571 phospho acidic carbohydrate aldolase (fragment);Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 585057009572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 585057009573 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 585057009574 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 585057009575 uridine phosphorylase; Provisional; Region: PRK11178 585057009576 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 585057009577 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 585057009578 Protein of unknown function (DUF796); Region: DUF796; cl01226 585057009579 putative transposase OrfB; Reviewed; Region: PHA02517 585057009580 HTH-like domain; Region: HTH_21; pfam13276 585057009581 Integrase core domain; Region: rve; pfam00665 585057009582 Integrase core domain; Region: rve_3; pfam13683 585057009583 Transposase; Region: HTH_Tnp_1; cl17663 585057009584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057009585 IS2 transposase TnpB; Reviewed; Region: PRK09409 585057009586 HTH-like domain; Region: HTH_21; pfam13276 585057009587 Integrase core domain; Region: rve; pfam00665 585057009588 Integrase core domain; Region: rve_3; pfam13683 585057009589 IS2 repressor TnpA; Reviewed; Region: PRK09413 585057009590 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057009591 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 585057009592 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 585057009593 THF binding site; other site 585057009594 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 585057009595 substrate binding site [chemical binding]; other site 585057009596 THF binding site; other site 585057009597 zinc-binding site [ion binding]; other site 585057009598 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 585057009599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009600 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 585057009601 putative dimerization interface [polypeptide binding]; other site 585057009602 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 585057009603 EamA-like transporter family; Region: EamA; pfam00892 585057009604 putative hydrolase; Provisional; Region: PRK10976 585057009605 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 585057009606 active site 585057009607 motif I; other site 585057009608 motif II; other site 585057009609 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057009610 lysophospholipase L2; Provisional; Region: PRK10749 585057009611 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 585057009612 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 585057009613 threonine efflux system; Provisional; Region: PRK10229 585057009614 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 585057009615 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 585057009616 ATP binding site [chemical binding]; other site 585057009617 putative Mg++ binding site [ion binding]; other site 585057009618 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 585057009619 nucleotide binding region [chemical binding]; other site 585057009620 ATP-binding site [chemical binding]; other site 585057009621 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 585057009622 Helicase and RNase D C-terminal; Region: HRDC; smart00341 585057009623 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 585057009624 dimerization interface [polypeptide binding]; other site 585057009625 substrate binding site [chemical binding]; other site 585057009626 active site 585057009627 calcium binding site [ion binding]; other site 585057009628 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 585057009629 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 585057009630 CoenzymeA binding site [chemical binding]; other site 585057009631 subunit interaction site [polypeptide binding]; other site 585057009632 PHB binding site; other site 585057009633 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 585057009634 Multidrug resistance efflux transporter; Region: EmrE; cl19304 585057009635 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 585057009636 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085 585057009637 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 585057009638 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 585057009639 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 585057009640 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 585057009641 Cl binding site [ion binding]; other site 585057009642 oligomer interface [polypeptide binding]; other site 585057009643 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057009644 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057009645 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057009646 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057009647 enolase; Provisional; Region: eno; PRK00077 585057009648 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 585057009649 dimer interface [polypeptide binding]; other site 585057009650 metal binding site [ion binding]; metal-binding site 585057009651 substrate binding pocket [chemical binding]; other site 585057009652 CTP synthetase; Validated; Region: pyrG; PRK05380 585057009653 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 585057009654 Catalytic site [active] 585057009655 active site 585057009656 UTP binding site [chemical binding]; other site 585057009657 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 585057009658 active site 585057009659 putative oxyanion hole; other site 585057009660 catalytic triad [active] 585057009661 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 585057009662 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 585057009663 homodimer interface [polypeptide binding]; other site 585057009664 metal binding site [ion binding]; metal-binding site 585057009665 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 585057009666 homodimer interface [polypeptide binding]; other site 585057009667 active site 585057009668 putative chemical substrate binding site [chemical binding]; other site 585057009669 metal binding site [ion binding]; metal-binding site 585057009670 toxin MazF; Provisional; Region: PRK09907 585057009671 antitoxin MazE; Provisional; Region: PRK09798 585057009672 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 585057009673 HD domain; Region: HD_4; pfam13328 585057009674 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 585057009675 synthetase active site [active] 585057009676 NTP binding site [chemical binding]; other site 585057009677 metal binding site [ion binding]; metal-binding site 585057009678 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 585057009679 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 585057009680 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 585057009681 TRAM domain; Region: TRAM; pfam01938 585057009682 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 585057009683 S-adenosylmethionine binding site [chemical binding]; other site 585057009684 fragment of hybrid sensory histidine kinase, in two-component regulatory system with UvrY (part 1);Evidence 7 : Gene remnant; Product type r : regulator 585057009685 HTH-like domain; Region: HTH_21; pfam13276 585057009686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057009687 Integrase core domain; Region: rve; pfam00665 585057009688 Integrase core domain; Region: rve_2; pfam13333 585057009689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057009690 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009691 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057009692 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057009693 fragment of hybrid sensory histidine kinase, in two-component regulatory system with UvrY (part 2);Evidence 7 : Gene remnant; Product type r : regulator 585057009694 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 585057009695 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 585057009696 active site 585057009697 tetramer interface [polypeptide binding]; other site 585057009698 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 585057009699 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 585057009700 active site 585057009701 tetramer interface [polypeptide binding]; other site 585057009702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009703 D-galactonate transporter; Region: 2A0114; TIGR00893 585057009704 putative substrate translocation pore; other site 585057009705 flavodoxin; Provisional; Region: PRK08105 585057009706 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 585057009707 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 585057009708 probable active site [active] 585057009709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 585057009710 SecY interacting protein Syd; Provisional; Region: PRK04968 585057009711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 585057009712 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 585057009713 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 585057009714 Domain of unknown function (DUF4478); Region: DUF4478; pfam14793 585057009715 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 585057009716 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 585057009717 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057009718 serine transporter; Region: stp; TIGR00814 585057009719 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 585057009720 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 585057009721 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 585057009722 flap endonuclease-like protein; Provisional; Region: PRK09482 585057009723 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 585057009724 active site 585057009725 metal binding site 1 [ion binding]; metal-binding site 585057009726 putative 5' ssDNA interaction site; other site 585057009727 metal binding site 3; metal-binding site 585057009728 metal binding site 2 [ion binding]; metal-binding site 585057009729 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 585057009730 putative DNA binding site [nucleotide binding]; other site 585057009731 putative metal binding site [ion binding]; other site 585057009732 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 585057009733 dimer interface [polypeptide binding]; other site 585057009734 active site 585057009735 metal binding site [ion binding]; metal-binding site 585057009736 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 585057009737 intersubunit interface [polypeptide binding]; other site 585057009738 active site 585057009739 Zn2+ binding site [ion binding]; other site 585057009740 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 585057009741 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009742 putative substrate translocation pore; other site 585057009743 L-fucose isomerase; Provisional; Region: fucI; PRK10991 585057009744 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 585057009745 hexamer (dimer of trimers) interface [polypeptide binding]; other site 585057009746 trimer interface [polypeptide binding]; other site 585057009747 substrate binding site [chemical binding]; other site 585057009748 Mn binding site [ion binding]; other site 585057009749 L-fuculokinase; Provisional; Region: PRK10331 585057009750 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 585057009751 nucleotide binding site [chemical binding]; other site 585057009752 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 585057009753 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 585057009754 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057009755 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057009756 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 585057009757 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 585057009758 hypothetical protein; Provisional; Region: PRK10873 585057009759 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 585057009760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009761 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 585057009762 dimerization interface [polypeptide binding]; other site 585057009763 substrate binding pocket [chemical binding]; other site 585057009764 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 585057009765 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 585057009766 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 585057009767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057009768 catalytic residue [active] 585057009769 CsdA-binding activator; Provisional; Region: PRK15019 585057009770 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 585057009771 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 585057009772 putative ATP binding site [chemical binding]; other site 585057009773 putative substrate interface [chemical binding]; other site 585057009774 murein transglycosylase A; Provisional; Region: mltA; PRK11162 585057009775 MltA specific insert domain; Region: MltA; smart00925 585057009776 3D domain; Region: 3D; pfam06725 585057009777 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 585057009778 AMIN domain; Region: AMIN; pfam11741 585057009779 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 585057009780 active site 585057009781 metal binding site [ion binding]; metal-binding site 585057009782 N-acetylglutamate synthase; Validated; Region: PRK05279 585057009783 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 585057009784 putative feedback inhibition sensing region; other site 585057009785 putative nucleotide binding site [chemical binding]; other site 585057009786 putative substrate binding site [chemical binding]; other site 585057009787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057009788 Coenzyme A binding pocket [chemical binding]; other site 585057009789 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 585057009790 AAA domain; Region: AAA_30; pfam13604 585057009791 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 585057009792 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 585057009793 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 585057009794 protease3; Provisional; Region: PRK15101 585057009795 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 585057009796 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585057009797 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585057009798 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 585057009799 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 585057009800 hypothetical protein; Provisional; Region: PRK10332 585057009801 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 585057009802 hypothetical protein; Provisional; Region: PRK11521 585057009803 hypothetical protein; Provisional; Region: PRK10557 585057009804 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 585057009805 hypothetical protein; Provisional; Region: PRK10506 585057009806 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 585057009807 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 585057009808 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 585057009809 dimerization interface [polypeptide binding]; other site 585057009810 active site 585057009811 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 585057009812 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 585057009813 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 585057009814 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 585057009815 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 585057009816 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 585057009817 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 585057009818 putative active site [active] 585057009819 Ap4A binding site [chemical binding]; other site 585057009820 nudix motif; other site 585057009821 putative metal binding site [ion binding]; other site 585057009822 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 585057009823 putative DNA-binding cleft [nucleotide binding]; other site 585057009824 putative DNA clevage site; other site 585057009825 molecular lever; other site 585057009826 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 585057009827 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 585057009828 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 585057009829 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057009830 active site 585057009831 catalytic tetrad [active] 585057009832 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009833 putative substrate translocation pore; other site 585057009834 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 585057009835 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 585057009836 putative acyl-acceptor binding pocket; other site 585057009837 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 585057009838 acyl-activating enzyme (AAE) consensus motif; other site 585057009839 putative AMP binding site [chemical binding]; other site 585057009840 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 585057009841 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057009842 DNA binding site [nucleotide binding] 585057009843 domain linker motif; other site 585057009844 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 585057009845 dimerization interface (closed form) [polypeptide binding]; other site 585057009846 ligand binding site [chemical binding]; other site 585057009847 diaminopimelate decarboxylase; Provisional; Region: PRK11165 585057009848 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 585057009849 active site 585057009850 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057009851 substrate binding site [chemical binding]; other site 585057009852 catalytic residues [active] 585057009853 dimer interface [polypeptide binding]; other site 585057009854 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 585057009855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057009856 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 585057009857 putative dimerization interface [polypeptide binding]; other site 585057009858 putative racemase; Provisional; Region: PRK10200 585057009859 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 585057009860 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057009861 putative substrate translocation pore; other site 585057009862 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 585057009863 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 585057009864 NADP binding site [chemical binding]; other site 585057009865 homodimer interface [polypeptide binding]; other site 585057009866 active site 585057009867 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 585057009868 putative acyltransferase; Provisional; Region: PRK05790 585057009869 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 585057009870 dimer interface [polypeptide binding]; other site 585057009871 active site 585057009872 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057009873 serine transporter; Region: stp; TIGR00814 585057009874 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 585057009875 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 585057009876 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 585057009877 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057009878 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 585057009879 Tetratricopeptide repeat; Region: TPR_3; pfam07720 585057009880 Tetratricopeptide repeat; Region: TPR_3; pfam07720 585057009881 transcriptional regulator; Provisional; Region: PRK11906 585057009882 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 585057009883 DNA binding site [nucleotide binding] 585057009884 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 585057009885 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 585057009886 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057009887 catalytic residue [active] 585057009888 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057009889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057009890 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057009891 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057009892 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 585057009893 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 585057009894 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 585057009895 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 585057009896 Peptidase family M23; Region: Peptidase_M23; pfam01551 585057009897 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 585057009898 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 585057009899 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 585057009900 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 585057009901 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 585057009902 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 585057009903 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 585057009904 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 585057009905 catalytic loop [active] 585057009906 iron binding site [ion binding]; other site 585057009907 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 585057009908 GAF domain; Region: GAF; cl17456 585057009909 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 585057009910 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 585057009911 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 585057009912 Walker A motif; other site 585057009913 ATP binding site [chemical binding]; other site 585057009914 Walker B motif; other site 585057009915 arginine finger; other site 585057009916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057009917 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 585057009918 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 585057009919 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 585057009920 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 585057009921 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057009922 catalytic residue [active] 585057009923 peptidase; Reviewed; Region: PRK13004 585057009924 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 585057009925 putative metal binding site [ion binding]; other site 585057009926 putative dimer interface [polypeptide binding]; other site 585057009927 D-hydantoinase; Region: D-hydantoinase; TIGR02033 585057009928 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 585057009929 tetramer interface [polypeptide binding]; other site 585057009930 active site 585057009931 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 585057009932 putative substrate binding site [chemical binding]; other site 585057009933 nucleotide binding site [chemical binding]; other site 585057009934 nucleotide binding site [chemical binding]; other site 585057009935 homodimer interface [polypeptide binding]; other site 585057009936 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 585057009937 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 585057009938 XdhC Rossmann domain; Region: XdhC_C; pfam13478 585057009939 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 585057009940 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 585057009941 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 585057009942 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 585057009943 Ligand binding site; other site 585057009944 metal-binding site 585057009945 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 585057009946 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 585057009947 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 585057009948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057009949 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 585057009950 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 585057009951 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 585057009952 active site 585057009953 putative substrate binding pocket [chemical binding]; other site 585057009954 FAD binding domain; Region: FAD_binding_4; cl19922 585057009955 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 585057009956 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 585057009957 probable selenate reductase, molybdenum-binding subunit; Region: Se_sel_red_Mo; TIGR03313 585057009958 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 585057009959 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 585057009960 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 585057009961 uracil-xanthine permease; Region: ncs2; TIGR00801 585057009962 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057009963 guanine deaminase; Provisional; Region: PRK09228 585057009964 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 585057009965 active site 585057009966 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 585057009967 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057009968 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 585057009969 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 585057009970 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 585057009971 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 585057009972 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 585057009973 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 585057009974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 585057009975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057009976 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057009977 xanthine permease; Region: pbuX; TIGR03173 585057009978 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 585057009979 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 585057009980 active site 585057009981 metal binding site [ion binding]; metal-binding site 585057009982 nudix motif; other site 585057009983 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 585057009984 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 585057009985 dimer interface [polypeptide binding]; other site 585057009986 putative anticodon binding site; other site 585057009987 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 585057009988 motif 1; other site 585057009989 active site 585057009990 motif 2; other site 585057009991 motif 3; other site 585057009992 peptide chain release factor 2; Validated; Region: prfB; PRK00578 585057009993 This domain is found in peptide chain release factors; Region: PCRF; smart00937 585057009994 RF-1 domain; Region: RF-1; pfam00472 585057009995 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 585057009996 DHH family; Region: DHH; pfam01368 585057009997 DHHA1 domain; Region: DHHA1; pfam02272 585057009998 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 585057009999 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 585057010000 dimerization domain [polypeptide binding]; other site 585057010001 dimer interface [polypeptide binding]; other site 585057010002 catalytic residues [active] 585057010003 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 585057010004 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 585057010005 active site 585057010006 Int/Topo IB signature motif; other site 585057010007 flavodoxin FldB; Provisional; Region: PRK12359 585057010008 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 585057010009 hypothetical protein; Provisional; Region: PRK10878 585057010010 putative global regulator; Reviewed; Region: PRK09559 585057010011 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 585057010012 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 585057010013 hemolysin; Provisional; Region: PRK15087 585057010014 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 585057010015 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 585057010016 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 585057010017 glycine dehydrogenase; Provisional; Region: PRK05367 585057010018 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 585057010019 tetramer interface [polypeptide binding]; other site 585057010020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010021 catalytic residue [active] 585057010022 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 585057010023 tetramer interface [polypeptide binding]; other site 585057010024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010025 catalytic residue [active] 585057010026 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 585057010027 lipoyl attachment site [posttranslational modification]; other site 585057010028 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 585057010029 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 585057010030 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 585057010031 oxidoreductase; Provisional; Region: PRK08013 585057010032 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 585057010033 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 585057010034 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 585057010035 proline aminopeptidase P II; Provisional; Region: PRK10879 585057010036 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 585057010037 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 585057010038 active site 585057010039 hypothetical protein; Reviewed; Region: PRK01736 585057010040 Z-ring-associated protein; Provisional; Region: PRK10972 585057010041 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 585057010042 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 585057010043 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 585057010044 ligand binding site [chemical binding]; other site 585057010045 NAD binding site [chemical binding]; other site 585057010046 tetramer interface [polypeptide binding]; other site 585057010047 catalytic site [active] 585057010048 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 585057010049 L-serine binding site [chemical binding]; other site 585057010050 ACT domain interface; other site 585057010051 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 585057010052 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057010053 active site 585057010054 dimer interface [polypeptide binding]; other site 585057010055 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 585057010056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057010057 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 585057010058 putative dimerization interface [polypeptide binding]; other site 585057010059 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 585057010060 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 585057010061 active site 585057010062 substrate binding site [chemical binding]; other site 585057010063 coenzyme B12 binding site [chemical binding]; other site 585057010064 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 585057010065 B12 binding site [chemical binding]; other site 585057010066 cobalt ligand [ion binding]; other site 585057010067 LAO/AO transport system ATPase; Region: lao; TIGR00750 585057010068 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 585057010069 Walker A; other site 585057010070 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 585057010071 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 585057010072 substrate binding site [chemical binding]; other site 585057010073 oxyanion hole (OAH) forming residues; other site 585057010074 trimer interface [polypeptide binding]; other site 585057010075 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 585057010076 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 585057010077 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 585057010078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057010079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057010080 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 585057010081 dimerization interface [polypeptide binding]; other site 585057010082 oxidative stress defense protein; Provisional; Region: PRK11087 585057010083 arginine exporter protein; Provisional; Region: PRK09304 585057010084 mechanosensitive channel MscS; Provisional; Region: PRK10334 585057010085 Conserved TM helix; Region: TM_helix; pfam05552 585057010086 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057010087 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 585057010088 active site 585057010089 intersubunit interface [polypeptide binding]; other site 585057010090 zinc binding site [ion binding]; other site 585057010091 Na+ binding site [ion binding]; other site 585057010092 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 585057010093 substrate binding site [chemical binding]; other site 585057010094 hinge regions; other site 585057010095 ADP binding site [chemical binding]; other site 585057010096 catalytic site [active] 585057010097 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 585057010098 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 585057010099 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 585057010100 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 585057010101 trimer interface [polypeptide binding]; other site 585057010102 putative Zn binding site [ion binding]; other site 585057010103 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 585057010104 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 585057010105 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 585057010106 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 585057010107 Walker A/P-loop; other site 585057010108 ATP binding site [chemical binding]; other site 585057010109 Q-loop/lid; other site 585057010110 ABC transporter signature motif; other site 585057010111 Walker B; other site 585057010112 D-loop; other site 585057010113 H-loop/switch region; other site 585057010114 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 585057010115 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 585057010116 Walker A/P-loop; other site 585057010117 ATP binding site [chemical binding]; other site 585057010118 Q-loop/lid; other site 585057010119 ABC transporter signature motif; other site 585057010120 Walker B; other site 585057010121 D-loop; other site 585057010122 H-loop/switch region; other site 585057010123 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 585057010124 active site 585057010125 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 585057010126 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 585057010127 putative active site [active] 585057010128 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 585057010129 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057010130 putative NAD(P) binding site [chemical binding]; other site 585057010131 catalytic Zn binding site [ion binding]; other site 585057010132 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 585057010133 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 585057010134 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 585057010135 active site 585057010136 P-loop; other site 585057010137 phosphorylation site [posttranslational modification] 585057010138 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 585057010139 active site 585057010140 phosphorylation site [posttranslational modification] 585057010141 prohibitin homologues; Region: PHB; smart00244 585057010142 Prohibitin family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_prohibitin; cd03401 585057010143 transketolase; Reviewed; Region: PRK12753 585057010144 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 585057010145 TPP-binding site [chemical binding]; other site 585057010146 dimer interface [polypeptide binding]; other site 585057010147 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 585057010148 PYR/PP interface [polypeptide binding]; other site 585057010149 dimer interface [polypeptide binding]; other site 585057010150 TPP binding site [chemical binding]; other site 585057010151 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 585057010152 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 585057010153 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 585057010154 oligomer interface [polypeptide binding]; other site 585057010155 putative active site [active] 585057010156 Mn binding site [ion binding]; other site 585057010157 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 585057010158 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 585057010159 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 585057010160 dimer interface [polypeptide binding]; other site 585057010161 active site 585057010162 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057010163 catalytic residues [active] 585057010164 substrate binding site [chemical binding]; other site 585057010165 Virulence promoting factor; Region: YqgB; pfam11036 585057010166 S-adenosylmethionine synthetase; Validated; Region: PRK05250 585057010167 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 585057010168 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 585057010169 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 585057010170 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 585057010171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057010172 putative substrate translocation pore; other site 585057010173 hypothetical protein; Provisional; Region: PRK04860 585057010174 DNA-specific endonuclease I; Provisional; Region: PRK15137 585057010175 RNA methyltransferase, RsmE family; Region: TIGR00046 585057010176 glutathione synthetase; Provisional; Region: PRK05246 585057010177 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 585057010178 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 585057010179 hypothetical protein; Validated; Region: PRK00228 585057010180 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 585057010181 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 585057010182 Walker A motif; other site 585057010183 ATP binding site [chemical binding]; other site 585057010184 Walker B motif; other site 585057010185 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 585057010186 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057010187 catalytic residue [active] 585057010188 YGGT family; Region: YGGT; pfam02325 585057010189 Predicted integral membrane protein [Function unknown]; Region: COG0762 585057010190 hypothetical protein; Validated; Region: PRK05090 585057010191 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 585057010192 active site 585057010193 dimerization interface [polypeptide binding]; other site 585057010194 HemN family oxidoreductase; Provisional; Region: PRK05660 585057010195 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 585057010196 FeS/SAM binding site; other site 585057010197 HemN C-terminal domain; Region: HemN_C; pfam06969 585057010198 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 585057010199 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 585057010200 fragment of putative dicarboxylate permease (part 1);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057010201 Transposase; Region: HTH_Tnp_1; cl17663 585057010202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010203 putative transposase OrfB; Reviewed; Region: PHA02517 585057010204 HTH-like domain; Region: HTH_21; pfam13276 585057010205 Integrase core domain; Region: rve; pfam00665 585057010206 Integrase core domain; Region: rve_3; pfam13683 585057010207 fragment of putative dicarboxylate permease (part 2);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057010208 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 585057010209 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 585057010210 active site 585057010211 homodimer interface [polypeptide binding]; other site 585057010212 hypothetical protein; Provisional; Region: PRK10626 585057010213 hypothetical protein; Provisional; Region: PRK11702 585057010214 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 585057010215 adenine DNA glycosylase; Provisional; Region: PRK10880 585057010216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 585057010217 minor groove reading motif; other site 585057010218 helix-hairpin-helix signature motif; other site 585057010219 substrate binding pocket [chemical binding]; other site 585057010220 active site 585057010221 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 585057010222 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 585057010223 DNA binding and oxoG recognition site [nucleotide binding] 585057010224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2924 585057010225 murein transglycosylase C; Provisional; Region: mltC; PRK11671 585057010226 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 585057010227 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 585057010228 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057010229 catalytic residue [active] 585057010230 nucleoside transporter; Region: 2A0110; TIGR00889 585057010231 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 585057010232 ornithine decarboxylase; Provisional; Region: PRK13578 585057010233 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 585057010234 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 585057010235 homodimer interface [polypeptide binding]; other site 585057010236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010237 catalytic residue [active] 585057010238 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 585057010239 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 585057010240 integrase; Provisional; Region: PRK09692 585057010241 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 585057010242 active site 585057010243 Int/Topo IB signature motif; other site 585057010244 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 585057010245 TPR motif; other site 585057010246 binding surface 585057010247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057010248 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057010249 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057010250 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057010251 MarR family; Region: MarR_2; cl17246 585057010252 Transcriptional regulators [Transcription]; Region: MarR; COG1846 585057010253 Integrase core domain; Region: rve; pfam00665 585057010254 Integrase core domain; Region: rve_3; cl15866 585057010255 Transposase; Region: HTH_Tnp_1; cl17663 585057010256 Fimbrial adhesin PapG precursor (fragment);Evidence 2b : Function of strongly homologous gene; Product type s : structure 585057010257 Fimbrial adhesin PapG precursor (fragment);Evidence 2b : Function of strongly homologous gene; Product type s : structure 585057010258 Fimbrial protein; Region: Fimbrial; pfam00419 585057010259 Fimbrial protein; Region: Fimbrial; pfam00419 585057010260 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057010261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057010262 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057010263 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057010264 major pilin protein PapA (partial);Evidence 2b : Function of strongly homologous gene; Product type s : structure 585057010265 Pap fimbrial major pilin protein precursor (Pap pili) (partial);Evidence 2b : Function of strongly homologous gene; Product type s : structure 585057010266 pap operon regulatory protein PapB (partial);Evidence 2b : Function of strongly homologous gene; Product type r : regulator 585057010267 FaeA-like protein; Region: FaeA; pfam04703 585057010268 Integrase core domain; Region: rve; pfam00665 585057010269 Integrase core domain; Region: rve_3; pfam13683 585057010270 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057010271 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 585057010272 putative active site [active] 585057010273 putative NTP binding site [chemical binding]; other site 585057010274 putative nucleic acid binding site [nucleotide binding]; other site 585057010275 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057010276 HTH-like domain; Region: HTH_21; pfam13276 585057010277 transposase IstA (part 1), IS21;Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 585057010278 transposase IstA , IS21 (part 2);Evidence 7 : Gene remnant; Product type e : enzyme 585057010279 transposase/IS protein; Provisional; Region: PRK09183 585057010280 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 585057010281 Walker A motif; other site 585057010282 ATP binding site [chemical binding]; other site 585057010283 Walker B motif; other site 585057010284 arginine finger; other site 585057010285 putative transposase OrfB; Reviewed; Region: PHA02517 585057010286 Transposase; Region: HTH_Tnp_1; cl17663 585057010287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057010289 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057010290 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057010291 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057010292 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057010293 Protein of unknown function, DUF417; Region: DUF417; pfam04224 585057010294 Transposase; Region: HTH_Tnp_1; cl17663 585057010295 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010296 IS2 transposase TnpB; Reviewed; Region: PRK09409 585057010297 HTH-like domain; Region: HTH_21; pfam13276 585057010298 Integrase core domain; Region: rve; pfam00665 585057010299 Integrase core domain; Region: rve_3; pfam13683 585057010300 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057010301 putative substrate translocation pore; other site 585057010302 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057010303 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 585057010304 IucA / IucC family; Region: IucA_IucC; pfam04183 585057010305 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 585057010306 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 585057010307 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 585057010308 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 585057010309 IucA / IucC family; Region: IucA_IucC; pfam04183 585057010310 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 585057010311 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 585057010312 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057010313 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 585057010314 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 585057010315 N-terminal plug; other site 585057010316 ligand-binding site [chemical binding]; other site 585057010317 Serine protease sat precursor (Secreted autotransporter toxin) (partial);Evidence 2b : Function of strongly homologous gene; PubMedId : 11029690; Product type e : enzyme 585057010318 Transposase; Region: HTH_Tnp_1; cl17663 585057010319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010320 HTH-like domain; Region: HTH_21; pfam13276 585057010321 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057010322 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 585057010323 putative active site [active] 585057010324 putative NTP binding site [chemical binding]; other site 585057010325 putative nucleic acid binding site [nucleotide binding]; other site 585057010326 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057010327 Integrase core domain; Region: rve; pfam00665 585057010328 Integrase core domain; Region: rve_3; pfam13683 585057010329 Polysialic acid capsule expression protein (partial);Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 585057010330 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 585057010331 Chain length determinant protein; Region: Wzz; cl19730 585057010332 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 585057010333 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 585057010334 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 585057010335 Ligand binding site; other site 585057010336 oligomer interface; other site 585057010337 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 585057010338 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 585057010339 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 585057010340 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 585057010341 Alpha-2,8-polysialyltransferase (POLYST); Region: A-2_8-polyST; pfam07388 585057010342 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; cl19502 585057010343 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 585057010344 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 585057010345 active site 585057010346 homodimer interface [polypeptide binding]; other site 585057010347 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 585057010348 ligand binding site; other site 585057010349 tetramer interface; other site 585057010350 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 585057010351 active site 585057010352 catalytic triad [active] 585057010353 oxyanion hole [active] 585057010354 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 585057010355 NeuB family; Region: NeuB; pfam03102 585057010356 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 585057010357 NeuB binding interface [polypeptide binding]; other site 585057010358 putative substrate binding site [chemical binding]; other site 585057010359 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 585057010360 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 585057010361 putative trimer interface [polypeptide binding]; other site 585057010362 putative CoA binding site [chemical binding]; other site 585057010363 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 585057010364 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 585057010365 Walker A/P-loop; other site 585057010366 ATP binding site [chemical binding]; other site 585057010367 Q-loop/lid; other site 585057010368 ABC transporter signature motif; other site 585057010369 Walker B; other site 585057010370 D-loop; other site 585057010371 H-loop/switch region; other site 585057010372 ABC-2 type transporter; Region: ABC2_membrane; cl17235 585057010373 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 585057010374 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 585057010375 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 585057010376 GspL-like protein; Provisional; Region: PRK09662 585057010377 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 585057010378 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 585057010379 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 585057010380 type II secretion system protein J; Region: gspJ; TIGR01711 585057010381 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 585057010382 type II secretion system protein I; Region: gspI; TIGR01707 585057010383 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 585057010384 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 585057010385 Type II transport protein GspH; Region: GspH; pfam12019 585057010386 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 585057010387 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 585057010388 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 585057010389 type II secretion system protein F; Region: GspF; TIGR02120 585057010390 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 585057010391 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 585057010392 type II secretion system protein E; Region: type_II_gspE; TIGR02533 585057010393 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 585057010394 Walker A motif; other site 585057010395 ATP binding site [chemical binding]; other site 585057010396 Walker B motif; other site 585057010397 type II secretion system protein D; Region: type_II_gspD; TIGR02517 585057010398 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 585057010399 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 585057010400 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 585057010401 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 585057010402 putative type II secretion protein GspC; Provisional; Region: PRK09681 585057010403 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 585057010404 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 585057010405 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 585057010406 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 585057010407 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 585057010408 RanGTP-binding protein; Region: Ran-binding; pfam05508 585057010409 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 585057010410 Peptidase M60-like family; Region: M60-like; pfam13402 585057010411 glycolate transporter; Provisional; Region: PRK09695 585057010412 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 585057010413 active site 585057010414 hypothetical protein; Provisional; Region: PRK09732 585057010415 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 585057010416 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057010417 Cysteine-rich domain; Region: CCG; pfam02754 585057010418 Cysteine-rich domain; Region: CCG; pfam02754 585057010419 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 585057010420 FAD binding domain; Region: FAD_binding_4; pfam01565 585057010421 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 585057010422 FAD binding domain; Region: FAD_binding_4; pfam01565 585057010423 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 585057010424 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 585057010425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057010426 DNA-binding site [nucleotide binding]; DNA binding site 585057010427 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057010428 fragment of Putative AMP-dependent synthetase (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057010429 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 585057010430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057010431 NAD(P) binding site [chemical binding]; other site 585057010432 active site 585057010433 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 585057010434 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 585057010435 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 585057010436 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057010437 catalytic residue [active] 585057010438 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 585057010439 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 585057010440 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 585057010441 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 585057010442 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 585057010443 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 585057010444 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 585057010445 active site 585057010446 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 585057010447 TMP-binding site; other site 585057010448 ATP-binding site [chemical binding]; other site 585057010449 fragment of conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain (part 1);Evidence 7 : Gene remnant 585057010450 fragment of conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain (part 2);Evidence 7 : Gene remnant 585057010451 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 585057010452 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 585057010453 CHAP domain; Region: CHAP; pfam05257 585057010454 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 585057010455 putative S-transferase; Provisional; Region: PRK11752 585057010456 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 585057010457 C-terminal domain interface [polypeptide binding]; other site 585057010458 GSH binding site (G-site) [chemical binding]; other site 585057010459 dimer interface [polypeptide binding]; other site 585057010460 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 585057010461 dimer interface [polypeptide binding]; other site 585057010462 N-terminal domain interface [polypeptide binding]; other site 585057010463 active site 585057010464 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 585057010465 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 585057010466 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 585057010467 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 585057010468 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 585057010469 putative substrate-binding site; other site 585057010470 nickel binding site [ion binding]; other site 585057010471 hydrogenase 2 large subunit; Provisional; Region: PRK10467 585057010472 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 585057010473 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 585057010474 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057010475 hydrogenase 2 small subunit; Provisional; Region: PRK10468 585057010476 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 585057010477 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 585057010478 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 585057010479 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 585057010480 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 585057010481 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 585057010482 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 585057010483 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 585057010484 active site 585057010485 catalytic tetrad [active] 585057010486 hypothetical protein; Provisional; Region: PRK05208 585057010487 oxidoreductase; Provisional; Region: PRK07985 585057010488 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 585057010489 NAD binding site [chemical binding]; other site 585057010490 metal binding site [ion binding]; metal-binding site 585057010491 active site 585057010492 biopolymer transport protein ExbD; Provisional; Region: PRK11267 585057010493 biopolymer transport protein ExbB; Provisional; Region: PRK10414 585057010494 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 585057010495 homodimer interface [polypeptide binding]; other site 585057010496 substrate-cofactor binding pocket; other site 585057010497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010498 catalytic residue [active] 585057010499 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585057010500 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 585057010501 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 585057010502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057010503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057010504 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 585057010505 dimer interface [polypeptide binding]; other site 585057010506 active site 585057010507 metal binding site [ion binding]; metal-binding site 585057010508 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 585057010509 active site 585057010510 catalytic tetrad [active] 585057010511 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 585057010512 putative outer membrane lipoprotein; Provisional; Region: PRK09973 585057010513 hypothetical protein; Provisional; Region: PRK01254 585057010514 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 585057010515 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 585057010516 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 585057010517 FtsI repressor; Provisional; Region: PRK10883 585057010518 The first Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_1_CueO_FtsP; cd04232 585057010519 Domain 2 interface [polypeptide binding]; other site 585057010520 Domain 3 interface [polypeptide binding]; other site 585057010521 trinuclear Cu binding site [ion binding]; other site 585057010522 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 585057010523 Domain 1 interface [polypeptide binding]; other site 585057010524 Domain 3 interface [polypeptide binding]; other site 585057010525 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 585057010526 Domain 2 interface [polypeptide binding]; other site 585057010527 Domain 1 interface [polypeptide binding]; other site 585057010528 Type 1 (T1) Cu binding site [ion binding]; other site 585057010529 trinuclear Cu binding site [ion binding]; other site 585057010530 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 585057010531 putative acyl-acceptor binding pocket; other site 585057010532 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 585057010533 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 585057010534 CAP-like domain; other site 585057010535 active site 585057010536 primary dimer interface [polypeptide binding]; other site 585057010537 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 585057010538 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 585057010539 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 585057010540 peptide binding site [polypeptide binding]; other site 585057010541 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 585057010542 toxin interface [polypeptide binding]; other site 585057010543 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 585057010544 Zn binding site [ion binding]; other site 585057010545 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 585057010546 non-specific DNA binding site [nucleotide binding]; other site 585057010547 salt bridge; other site 585057010548 sequence-specific DNA binding site [nucleotide binding]; other site 585057010549 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 585057010550 peptide binding site [polypeptide binding]; other site 585057010551 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 585057010552 TIGR00156 family protein; Region: TIGR00156 585057010553 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 585057010554 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 585057010555 active site 585057010556 phosphorylation site [posttranslational modification] 585057010557 intermolecular recognition site; other site 585057010558 dimerization interface [polypeptide binding]; other site 585057010559 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 585057010560 DNA binding site [nucleotide binding] 585057010561 sensor protein QseC; Provisional; Region: PRK10337 585057010562 HAMP domain; Region: HAMP; pfam00672 585057010563 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 585057010564 dimer interface [polypeptide binding]; other site 585057010565 phosphorylation site [posttranslational modification] 585057010566 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 585057010567 ATP binding site [chemical binding]; other site 585057010568 Mg2+ binding site [ion binding]; other site 585057010569 G-X-G motif; other site 585057010570 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 585057010571 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 585057010572 Uncharacterized conserved protein [Function unknown]; Region: COG1359 585057010573 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 585057010574 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 585057010575 ATP binding site [chemical binding]; other site 585057010576 Mg2+ binding site [ion binding]; other site 585057010577 G-X-G motif; other site 585057010578 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 585057010579 anchoring element; other site 585057010580 dimer interface [polypeptide binding]; other site 585057010581 ATP binding site [chemical binding]; other site 585057010582 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 585057010583 active site 585057010584 metal binding site [ion binding]; metal-binding site 585057010585 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 585057010586 esterase YqiA; Provisional; Region: PRK11071 585057010587 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 585057010588 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 585057010589 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 585057010590 active site 585057010591 metal binding site [ion binding]; metal-binding site 585057010592 hexamer interface [polypeptide binding]; other site 585057010593 putative dehydrogenase; Provisional; Region: PRK11039 585057010594 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 585057010595 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 585057010596 dimer interface [polypeptide binding]; other site 585057010597 ADP-ribose binding site [chemical binding]; other site 585057010598 active site 585057010599 nudix motif; other site 585057010600 metal binding site [ion binding]; metal-binding site 585057010601 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 585057010602 Outer membrane efflux protein; Region: OEP; pfam02321 585057010603 Outer membrane efflux protein; Region: OEP; pfam02321 585057010604 hypothetical protein; Provisional; Region: PRK11653 585057010605 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 585057010606 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 585057010607 putative active site [active] 585057010608 metal binding site [ion binding]; metal-binding site 585057010609 zinc transporter ZupT; Provisional; Region: PRK04201 585057010610 Protein of unknown function (DUF4051); Region: DUF4051; pfam13260 585057010611 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 585057010612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 585057010613 putative fimbrial protein; Provisional; Region: PRK09733 585057010614 fragment of outer membrane usher protein (part 1);Evidence 7 : Gene remnant; Product type f : factor 585057010615 fragment of outer membrane usher protein (part 2);Evidence 7 : Gene remnant; Product type f : factor 585057010616 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 585057010617 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057010618 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057010619 Fimbrial protein; Region: Fimbrial; pfam00419 585057010620 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 585057010621 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 585057010622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 585057010623 Flotillin or reggie family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_flotillin; cd03399 585057010624 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 585057010625 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 585057010626 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 585057010627 putative ribose interaction site [chemical binding]; other site 585057010628 putative ADP binding site [chemical binding]; other site 585057010629 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 585057010630 active site 585057010631 nucleotide binding site [chemical binding]; other site 585057010632 HIGH motif; other site 585057010633 KMSKS motif; other site 585057010634 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 585057010635 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 585057010636 metal binding triad; other site 585057010637 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 585057010638 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 585057010639 metal binding triad; other site 585057010640 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 585057010641 Uncharacterized conserved protein [Function unknown]; Region: COG3025 585057010642 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 585057010643 putative active site [active] 585057010644 putative metal binding residues [ion binding]; other site 585057010645 signature motif; other site 585057010646 putative triphosphate binding site [ion binding]; other site 585057010647 CHAD domain; Region: CHAD; pfam05235 585057010648 SH3 domain-containing protein; Provisional; Region: PRK10884 585057010649 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 585057010650 Bacterial SH3 domain homologues; Region: SH3b; smart00287 585057010651 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 585057010652 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 585057010653 active site 585057010654 NTP binding site [chemical binding]; other site 585057010655 metal binding triad [ion binding]; metal-binding site 585057010656 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 585057010657 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057010658 Zn2+ binding site [ion binding]; other site 585057010659 Mg2+ binding site [ion binding]; other site 585057010660 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 585057010661 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 585057010662 homooctamer interface [polypeptide binding]; other site 585057010663 active site 585057010664 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 585057010665 transcriptional activator TtdR; Provisional; Region: PRK09801 585057010666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057010667 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 585057010668 putative effector binding pocket; other site 585057010669 putative dimerization interface [polypeptide binding]; other site 585057010670 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 585057010671 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 585057010672 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 585057010673 anion transporter; Region: dass; TIGR00785 585057010674 transmembrane helices; other site 585057010675 UGMP family protein; Validated; Region: PRK09604 585057010676 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057010677 nucleotide binding site [chemical binding]; other site 585057010678 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 585057010679 DNA primase; Validated; Region: dnaG; PRK05667 585057010680 CHC2 zinc finger; Region: zf-CHC2; pfam01807 585057010681 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 585057010682 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 585057010683 active site 585057010684 metal binding site [ion binding]; metal-binding site 585057010685 interdomain interaction site; other site 585057010686 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 585057010687 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 585057010688 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 585057010689 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 585057010690 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 585057010691 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 585057010692 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057010693 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 585057010694 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 585057010695 DNA binding residues [nucleotide binding] 585057010696 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057010697 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057010698 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057010699 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 585057010700 active site 585057010701 SUMO-1 interface [polypeptide binding]; other site 585057010702 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 585057010703 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 585057010704 FAD binding pocket [chemical binding]; other site 585057010705 FAD binding motif [chemical binding]; other site 585057010706 phosphate binding motif [ion binding]; other site 585057010707 NAD binding pocket [chemical binding]; other site 585057010708 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010709 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057010710 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057010711 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057010712 HTH-like domain; Region: HTH_21; pfam13276 585057010713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057010714 Integrase core domain; Region: rve; pfam00665 585057010715 Integrase core domain; Region: rve_2; pfam13333 585057010716 Predicted transcriptional regulators [Transcription]; Region: COG1695 585057010717 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 585057010718 PAS fold; Region: PAS_3; pfam08447 585057010719 putative active site [active] 585057010720 heme pocket [chemical binding]; other site 585057010721 HAMP domain; Region: HAMP; pfam00672 585057010722 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 585057010723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585057010724 dimer interface [polypeptide binding]; other site 585057010725 putative CheW interface [polypeptide binding]; other site 585057010726 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 585057010727 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057010728 inhibitor-cofactor binding pocket; inhibition site 585057010729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010730 catalytic residue [active] 585057010731 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 585057010732 dimer interface [polypeptide binding]; other site 585057010733 putative tRNA-binding site [nucleotide binding]; other site 585057010734 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 585057010735 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057010736 DNA binding site [nucleotide binding] 585057010737 domain linker motif; other site 585057010738 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 585057010739 putative dimerization interface [polypeptide binding]; other site 585057010740 putative ligand binding site [chemical binding]; other site 585057010741 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 585057010742 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 585057010743 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 585057010744 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 585057010745 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 585057010746 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 585057010747 inner membrane transporter YjeM; Provisional; Region: PRK15238 585057010748 alpha-glucosidase; Provisional; Region: PRK10137 585057010749 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 585057010750 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 585057010751 active site 585057010752 FMN binding site [chemical binding]; other site 585057010753 2,4-decadienoyl-CoA binding site; other site 585057010754 catalytic residue [active] 585057010755 4Fe-4S cluster binding site [ion binding]; other site 585057010756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057010757 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 585057010758 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 585057010759 S-adenosylmethionine binding site [chemical binding]; other site 585057010760 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 585057010761 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 585057010762 putative active site [active] 585057010763 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 585057010764 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057010765 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 585057010766 serine/threonine transporter SstT; Provisional; Region: PRK13628 585057010767 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 585057010768 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 585057010769 galactarate dehydratase; Region: galactar-dH20; TIGR03248 585057010770 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 585057010771 glucuronate isomerase; Reviewed; Region: PRK02925 585057010772 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057010773 D-galactonate transporter; Region: 2A0114; TIGR00893 585057010774 putative substrate translocation pore; other site 585057010775 CblD like pilus biogenesis initiator; Region: CblD; cl06460 585057010776 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 585057010777 Outer membrane usher protein; Region: Usher; pfam00577 585057010778 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 585057010779 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 585057010780 putative fimbrial protein TcfA; Provisional; Region: PRK15308 585057010781 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 585057010782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057010783 DNA-binding site [nucleotide binding]; DNA binding site 585057010784 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057010785 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 585057010786 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 585057010787 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 585057010788 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 585057010789 Predicted membrane protein [Function unknown]; Region: COG5393 585057010790 YqjK-like protein; Region: YqjK; pfam13997 585057010791 Predicted membrane protein [Function unknown]; Region: COG2259 585057010792 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 585057010793 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 585057010794 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 585057010795 putative dimer interface [polypeptide binding]; other site 585057010796 N-terminal domain interface [polypeptide binding]; other site 585057010797 putative substrate binding pocket (H-site) [chemical binding]; other site 585057010798 Predicted membrane protein [Function unknown]; Region: COG3152 585057010799 Predicted membrane protein [Function unknown]; Region: COG3152 585057010800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057010801 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 585057010802 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 585057010803 dimerization interface [polypeptide binding]; other site 585057010804 Pirin-related protein [General function prediction only]; Region: COG1741 585057010805 Pirin; Region: Pirin; pfam02678 585057010806 HTH-like domain; Region: HTH_21; pfam13276 585057010807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057010808 Integrase core domain; Region: rve; pfam00665 585057010809 Integrase core domain; Region: rve_2; pfam13333 585057010810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057010811 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057010812 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057010813 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057010814 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 585057010815 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057010816 serine transporter; Region: stp; TIGR00814 585057010817 L-serine dehydratase TdcG; Provisional; Region: PRK15040 585057010818 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 585057010819 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 585057010820 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 585057010821 homotrimer interaction site [polypeptide binding]; other site 585057010822 putative active site [active] 585057010823 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 585057010824 Pyruvate formate lyase 1; Region: PFL1; cd01678 585057010825 coenzyme A binding site [chemical binding]; other site 585057010826 active site 585057010827 catalytic residues [active] 585057010828 glycine loop; other site 585057010829 propionate/acetate kinase; Provisional; Region: PRK12379 585057010830 threonine/serine transporter TdcC; Provisional; Region: PRK13629 585057010831 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057010832 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 585057010833 tetramer interface [polypeptide binding]; other site 585057010834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057010835 catalytic residue [active] 585057010836 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 585057010837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057010838 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 585057010839 putative substrate binding pocket [chemical binding]; other site 585057010840 putative dimerization interface [polypeptide binding]; other site 585057010841 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 585057010842 hypothetical protein; Provisional; Region: PRK09716 585057010843 glycerate kinase I; Provisional; Region: PRK10342 585057010844 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 585057010845 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 585057010846 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 585057010847 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 585057010848 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057010849 D-galactonate transporter; Region: 2A0114; TIGR00893 585057010850 putative substrate translocation pore; other site 585057010851 galactarate dehydratase; Region: galactar-dH20; TIGR03248 585057010852 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 585057010853 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 585057010854 putative regulator PrlF; Provisional; Region: PRK09974 585057010855 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 585057010856 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 585057010857 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057010858 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057010859 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 585057010860 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 585057010861 active site 585057010862 phosphorylation site [posttranslational modification] 585057010863 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 585057010864 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 585057010865 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 585057010866 active pocket/dimerization site; other site 585057010867 active site 585057010868 phosphorylation site [posttranslational modification] 585057010869 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 585057010870 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 585057010871 active site 585057010872 dimer interface [polypeptide binding]; other site 585057010873 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 585057010874 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 585057010875 dimer interface [polypeptide binding]; other site 585057010876 active site 585057010877 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 585057010878 putative active site [active] 585057010879 tagatose-bisphosphate aldolase; Reviewed; Region: kbaY; PRK12738 585057010880 active site 585057010881 intersubunit interface [polypeptide binding]; other site 585057010882 zinc binding site [ion binding]; other site 585057010883 Na+ binding site [ion binding]; other site 585057010884 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 585057010885 active site 585057010886 phosphorylation site [posttranslational modification] 585057010887 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 585057010888 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 585057010889 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 585057010890 active site 585057010891 trimer interface [polypeptide binding]; other site 585057010892 allosteric site; other site 585057010893 active site lid [active] 585057010894 hexamer (dimer of trimers) interface [polypeptide binding]; other site 585057010895 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 585057010896 putative SAM binding site [chemical binding]; other site 585057010897 putative homodimer interface [polypeptide binding]; other site 585057010898 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 585057010899 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 585057010900 putative ligand binding site [chemical binding]; other site 585057010901 TIGR00252 family protein; Region: TIGR00252 585057010902 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 585057010903 dimer interface [polypeptide binding]; other site 585057010904 active site 585057010905 outer membrane lipoprotein; Provisional; Region: PRK11023 585057010906 BON domain; Region: BON; pfam04972 585057010907 BON domain; Region: BON; pfam04972 585057010908 Predicted permease; Region: DUF318; pfam03773 585057010909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 585057010910 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 585057010911 NAD(P) binding site [chemical binding]; other site 585057010912 active site 585057010913 intracellular protease, PfpI family; Region: PfpI; TIGR01382 585057010914 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 585057010915 proposed catalytic triad [active] 585057010916 conserved cys residue [active] 585057010917 hypothetical protein; Provisional; Region: PRK03467 585057010918 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 585057010919 GIY-YIG motif/motif A; other site 585057010920 putative active site [active] 585057010921 putative metal binding site [ion binding]; other site 585057010922 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 585057010923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057010924 Coenzyme A binding pocket [chemical binding]; other site 585057010925 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 585057010926 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 585057010927 putative protease; Provisional; Region: PRK15447 585057010928 hypothetical protein; Provisional; Region: PRK10508 585057010929 tryptophan permease; Provisional; Region: PRK10483 585057010930 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057010931 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 585057010932 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 585057010933 ATP binding site [chemical binding]; other site 585057010934 Mg++ binding site [ion binding]; other site 585057010935 motif III; other site 585057010936 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 585057010937 nucleotide binding region [chemical binding]; other site 585057010938 ATP-binding site [chemical binding]; other site 585057010939 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 585057010940 putative RNA binding site [nucleotide binding]; other site 585057010941 lipoprotein NlpI; Provisional; Region: PRK11189 585057010942 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 585057010943 binding surface 585057010944 TPR motif; other site 585057010945 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 585057010946 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 585057010947 RNase E interface [polypeptide binding]; other site 585057010948 trimer interface [polypeptide binding]; other site 585057010949 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 585057010950 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 585057010951 RNase E interface [polypeptide binding]; other site 585057010952 trimer interface [polypeptide binding]; other site 585057010953 active site 585057010954 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 585057010955 putative nucleic acid binding region [nucleotide binding]; other site 585057010956 G-X-X-G motif; other site 585057010957 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 585057010958 RNA binding site [nucleotide binding]; other site 585057010959 domain interface; other site 585057010960 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 585057010961 16S/18S rRNA binding site [nucleotide binding]; other site 585057010962 S13e-L30e interaction site [polypeptide binding]; other site 585057010963 25S rRNA binding site [nucleotide binding]; other site 585057010964 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 585057010965 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 585057010966 RNA binding site [nucleotide binding]; other site 585057010967 active site 585057010968 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 585057010969 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 585057010970 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 585057010971 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 585057010972 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 585057010973 translation initiation factor IF-2; Validated; Region: infB; PRK05306 585057010974 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 585057010975 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 585057010976 G1 box; other site 585057010977 putative GEF interaction site [polypeptide binding]; other site 585057010978 GTP/Mg2+ binding site [chemical binding]; other site 585057010979 Switch I region; other site 585057010980 G2 box; other site 585057010981 G3 box; other site 585057010982 Switch II region; other site 585057010983 G4 box; other site 585057010984 G5 box; other site 585057010985 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 585057010986 Translation-initiation factor 2; Region: IF-2; pfam11987 585057010987 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 585057010988 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 585057010989 NusA N-terminal domain; Region: NusA_N; pfam08529 585057010990 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 585057010991 RNA binding site [nucleotide binding]; other site 585057010992 homodimer interface [polypeptide binding]; other site 585057010993 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 585057010994 G-X-X-G motif; other site 585057010995 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 585057010996 G-X-X-G motif; other site 585057010997 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 585057010998 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 585057010999 hypothetical protein; Provisional; Region: PRK14641 585057011000 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 585057011001 putative oligomer interface [polypeptide binding]; other site 585057011002 putative RNA binding site [nucleotide binding]; other site 585057011003 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 585057011004 ANP binding site [chemical binding]; other site 585057011005 Substrate Binding Site II [chemical binding]; other site 585057011006 Substrate Binding Site I [chemical binding]; other site 585057011007 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 585057011008 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 585057011009 Sulfatase; Region: Sulfatase; pfam00884 585057011010 Preprotein translocase SecG subunit; Region: SecG; pfam03840 585057011011 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 585057011012 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 585057011013 active site 585057011014 substrate binding site [chemical binding]; other site 585057011015 metal binding site [ion binding]; metal-binding site 585057011016 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 585057011017 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 585057011018 substrate binding pocket [chemical binding]; other site 585057011019 dimer interface [polypeptide binding]; other site 585057011020 inhibitor binding site; inhibition site 585057011021 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 585057011022 FtsH Extracellular; Region: FtsH_ext; pfam06480 585057011023 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 585057011024 Walker A motif; other site 585057011025 ATP binding site [chemical binding]; other site 585057011026 Walker B motif; other site 585057011027 arginine finger; other site 585057011028 Peptidase family M41; Region: Peptidase_M41; pfam01434 585057011029 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 585057011030 S-adenosylmethionine binding site [chemical binding]; other site 585057011031 RNA-binding protein YhbY; Provisional; Region: PRK10343 585057011032 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 585057011033 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 585057011034 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 585057011035 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 585057011036 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 585057011037 GTPase CgtA; Reviewed; Region: obgE; PRK12298 585057011038 GTP1/OBG; Region: GTP1_OBG; pfam01018 585057011039 Obg GTPase; Region: Obg; cd01898 585057011040 G1 box; other site 585057011041 GTP/Mg2+ binding site [chemical binding]; other site 585057011042 Switch I region; other site 585057011043 G2 box; other site 585057011044 G3 box; other site 585057011045 Switch II region; other site 585057011046 G4 box; other site 585057011047 G5 box; other site 585057011048 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 585057011049 EamA-like transporter family; Region: EamA; pfam00892 585057011050 EamA-like transporter family; Region: EamA; pfam00892 585057011051 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 585057011052 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 585057011053 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 585057011054 substrate binding pocket [chemical binding]; other site 585057011055 chain length determination region; other site 585057011056 substrate-Mg2+ binding site; other site 585057011057 catalytic residues [active] 585057011058 aspartate-rich region 1; other site 585057011059 active site lid residues [active] 585057011060 aspartate-rich region 2; other site 585057011061 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 585057011062 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 585057011063 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 585057011064 hinge; other site 585057011065 active site 585057011066 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 585057011067 Predicted NTP binding protein (contains STAS domain) [General function prediction only]; Region: COG3113 585057011068 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 585057011069 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 585057011070 mce related protein; Region: MCE; pfam02470 585057011071 conserved hypothetical integral membrane protein; Region: TIGR00056 585057011072 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 585057011073 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 585057011074 Walker A/P-loop; other site 585057011075 ATP binding site [chemical binding]; other site 585057011076 Q-loop/lid; other site 585057011077 ABC transporter signature motif; other site 585057011078 Walker B; other site 585057011079 D-loop; other site 585057011080 H-loop/switch region; other site 585057011081 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 585057011082 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 585057011083 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 585057011084 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 585057011085 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 585057011086 putative active site [active] 585057011087 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 585057011088 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 585057011089 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 585057011090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 585057011091 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 585057011092 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 585057011093 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 585057011094 Walker A/P-loop; other site 585057011095 ATP binding site [chemical binding]; other site 585057011096 Q-loop/lid; other site 585057011097 ABC transporter signature motif; other site 585057011098 Walker B; other site 585057011099 D-loop; other site 585057011100 H-loop/switch region; other site 585057011101 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 585057011102 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 585057011103 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 585057011104 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 585057011105 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 585057011106 30S subunit binding site; other site 585057011107 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 585057011108 active site 585057011109 phosphorylation site [posttranslational modification] 585057011110 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 585057011111 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 585057011112 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 585057011113 dimerization domain swap beta strand [polypeptide binding]; other site 585057011114 regulatory protein interface [polypeptide binding]; other site 585057011115 active site 585057011116 regulatory phosphorylation site [posttranslational modification]; other site 585057011117 hypothetical protein; Provisional; Region: PRK10345 585057011118 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 585057011119 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 585057011120 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 585057011121 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 585057011122 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 585057011123 conserved cys residue [active] 585057011124 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 585057011125 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 585057011126 putative active site [active] 585057011127 heme pocket [chemical binding]; other site 585057011128 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 585057011129 dimer interface [polypeptide binding]; other site 585057011130 phosphorylation site [posttranslational modification] 585057011131 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 585057011132 ATP binding site [chemical binding]; other site 585057011133 Mg2+ binding site [ion binding]; other site 585057011134 G-X-G motif; other site 585057011135 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 585057011136 active site 585057011137 phosphorylation site [posttranslational modification] 585057011138 intermolecular recognition site; other site 585057011139 dimerization interface [polypeptide binding]; other site 585057011140 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 585057011141 putative binding surface; other site 585057011142 active site 585057011143 radical SAM protein, TIGR01212 family; Region: TIGR01212 585057011144 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 585057011145 FeS/SAM binding site; other site 585057011146 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 585057011147 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 585057011148 active site 585057011149 dimer interface [polypeptide binding]; other site 585057011150 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 585057011151 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 585057011152 active site 585057011153 FMN binding site [chemical binding]; other site 585057011154 substrate binding site [chemical binding]; other site 585057011155 3Fe-4S cluster binding site [ion binding]; other site 585057011156 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 585057011157 domain interface; other site 585057011158 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 585057011159 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 585057011160 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057011161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057011162 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 585057011163 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 585057011164 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057011165 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057011166 nucleotide binding site [chemical binding]; other site 585057011167 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 585057011168 putative active site cavity [active] 585057011169 putative sialic acid transporter; Provisional; Region: PRK03893 585057011170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057011171 putative substrate translocation pore; other site 585057011172 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 585057011173 inhibitor site; inhibition site 585057011174 active site 585057011175 dimer interface [polypeptide binding]; other site 585057011176 catalytic residue [active] 585057011177 transcriptional regulator NanR; Provisional; Region: PRK03837 585057011178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057011179 DNA-binding site [nucleotide binding]; DNA binding site 585057011180 FCD domain; Region: FCD; pfam07729 585057011181 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 585057011182 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 585057011183 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 585057011184 stringent starvation protein A; Provisional; Region: sspA; PRK09481 585057011185 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 585057011186 C-terminal domain interface [polypeptide binding]; other site 585057011187 putative GSH binding site (G-site) [chemical binding]; other site 585057011188 dimer interface [polypeptide binding]; other site 585057011189 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 585057011190 dimer interface [polypeptide binding]; other site 585057011191 N-terminal domain interface [polypeptide binding]; other site 585057011192 Family of unknown function (DUF695); Region: DUF695; pfam05117 585057011193 TIGR01619 family protein; Region: hyp_HI0040 585057011194 Regulator of ribonuclease activity B; Region: RraB; pfam06877 585057011195 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 585057011196 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 585057011197 23S rRNA interface [nucleotide binding]; other site 585057011198 L3 interface [polypeptide binding]; other site 585057011199 Predicted ATPase [General function prediction only]; Region: COG1485 585057011200 hypothetical protein; Provisional; Region: PRK11677 585057011201 serine endoprotease; Provisional; Region: PRK10139 585057011202 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 585057011203 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 585057011204 protein binding site [polypeptide binding]; other site 585057011205 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 585057011206 serine endoprotease; Provisional; Region: PRK10898 585057011207 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 585057011208 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 585057011209 protein binding site [polypeptide binding]; other site 585057011210 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057011211 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057011212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057011213 malate dehydrogenase; Provisional; Region: PRK05086 585057011214 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 585057011215 NAD binding site [chemical binding]; other site 585057011216 dimerization interface [polypeptide binding]; other site 585057011217 Substrate binding site [chemical binding]; other site 585057011218 arginine repressor; Provisional; Region: PRK05066 585057011219 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 585057011220 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 585057011221 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057011222 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 585057011223 RNAase interaction site [polypeptide binding]; other site 585057011224 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 585057011225 Fusaric acid resistance protein family; Region: FUSC; pfam04632 585057011226 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 585057011227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057011228 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057011229 efflux system membrane protein; Provisional; Region: PRK11594 585057011230 transcriptional regulator; Provisional; Region: PRK10632 585057011231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057011232 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 585057011233 putative effector binding pocket; other site 585057011234 dimerization interface [polypeptide binding]; other site 585057011235 protease TldD; Provisional; Region: tldD; PRK10735 585057011236 HTH-like domain; Region: HTH_21; pfam13276 585057011237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057011238 Integrase core domain; Region: rve; pfam00665 585057011239 Integrase core domain; Region: rve_2; pfam13333 585057011240 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057011241 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057011242 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057011243 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057011244 hypothetical protein; Provisional; Region: PRK10899 585057011245 Protein of unknown function; Region: DUF3971; pfam13116 585057011246 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585057011247 ribonuclease G; Provisional; Region: PRK11712 585057011248 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 585057011249 homodimer interface [polypeptide binding]; other site 585057011250 oligonucleotide binding site [chemical binding]; other site 585057011251 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 585057011252 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 585057011253 active site 585057011254 dimer interface [polypeptide binding]; other site 585057011255 rod shape-determining protein MreD; Provisional; Region: PRK11060 585057011256 rod shape-determining protein MreC; Region: mreC; TIGR00219 585057011257 rod shape-determining protein MreB; Provisional; Region: PRK13927 585057011258 MreB and similar proteins; Region: MreB_like; cd10225 585057011259 nucleotide binding site [chemical binding]; other site 585057011260 Mg binding site [ion binding]; other site 585057011261 putative protofilament interaction site [polypeptide binding]; other site 585057011262 RodZ interaction site [polypeptide binding]; other site 585057011263 regulatory protein CsrD; Provisional; Region: PRK11059 585057011264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 585057011265 metal binding site [ion binding]; metal-binding site 585057011266 active site 585057011267 I-site; other site 585057011268 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 585057011269 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 585057011270 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 585057011271 NADP binding site [chemical binding]; other site 585057011272 dimer interface [polypeptide binding]; other site 585057011273 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 585057011274 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 585057011275 carboxyltransferase (CT) interaction site; other site 585057011276 biotinylation site [posttranslational modification]; other site 585057011277 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 585057011278 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 585057011279 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 585057011280 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 585057011281 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 585057011282 active site 585057011283 catalytic residues [active] 585057011284 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 585057011285 substrate binding site [chemical binding]; other site 585057011286 ATP binding site [chemical binding]; other site 585057011287 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 585057011288 TM-ABC transporter signature motif; other site 585057011289 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 585057011290 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057011291 Walker A/P-loop; other site 585057011292 ATP binding site [chemical binding]; other site 585057011293 Q-loop/lid; other site 585057011294 ABC transporter signature motif; other site 585057011295 Walker B; other site 585057011296 D-loop; other site 585057011297 H-loop/switch region; other site 585057011298 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057011299 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 585057011300 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 585057011301 putative ligand binding site [chemical binding]; other site 585057011302 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 585057011303 intersubunit interface [polypeptide binding]; other site 585057011304 active site 585057011305 zinc binding site [ion binding]; other site 585057011306 Na+ binding site [ion binding]; other site 585057011307 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057011308 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 585057011309 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057011310 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 585057011311 substrate binding site [chemical binding]; other site 585057011312 ATP binding site [chemical binding]; other site 585057011313 hypothetical protein; Provisional; Region: PRK10633 585057011314 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 585057011315 Na binding site [ion binding]; other site 585057011316 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 585057011317 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 585057011318 S-adenosylmethionine binding site [chemical binding]; other site 585057011319 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 585057011320 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 585057011321 FMN binding site [chemical binding]; other site 585057011322 active site 585057011323 catalytic residues [active] 585057011324 substrate binding site [chemical binding]; other site 585057011325 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 585057011326 putative methyltransferase; Provisional; Region: PRK11524 585057011327 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 585057011328 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 585057011329 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 585057011330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057011331 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 585057011332 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 585057011333 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057011334 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057011335 fragment of multidrug efflux system protein (part 1);Evidence 7 : Gene remnant; Product type t : transporter 585057011336 fragment of multidrug efflux system protein (part 2);Evidence 7 : Gene remnant; Product type t : transporter 585057011337 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 585057011338 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 585057011339 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 585057011340 substrate binding pocket [chemical binding]; other site 585057011341 membrane-bound complex binding site; other site 585057011342 hinge residues; other site 585057011343 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 585057011344 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 585057011345 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 585057011346 dimer interface [polypeptide binding]; other site 585057011347 conserved gate region; other site 585057011348 putative PBP binding loops; other site 585057011349 ABC-ATPase subunit interface; other site 585057011350 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 585057011351 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 585057011352 dimer interface [polypeptide binding]; other site 585057011353 conserved gate region; other site 585057011354 putative PBP binding loops; other site 585057011355 ABC-ATPase subunit interface; other site 585057011356 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 585057011357 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 585057011358 Walker A/P-loop; other site 585057011359 ATP binding site [chemical binding]; other site 585057011360 Q-loop/lid; other site 585057011361 ABC transporter signature motif; other site 585057011362 Walker B; other site 585057011363 D-loop; other site 585057011364 H-loop/switch region; other site 585057011365 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 585057011366 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 585057011367 trimer interface [polypeptide binding]; other site 585057011368 putative metal binding site [ion binding]; other site 585057011369 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 585057011370 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 585057011371 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 585057011372 shikimate binding site; other site 585057011373 NAD(P) binding site [chemical binding]; other site 585057011374 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 585057011375 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 585057011376 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585057011377 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 585057011378 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585057011379 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 585057011380 hypothetical protein; Validated; Region: PRK03430 585057011381 fragment of conserved hypothetical protein (part 2);Evidence 7 : Gene remnant 585057011382 fragment of conserved hypothetical protein (part 1);Evidence 7 : Gene remnant 585057011383 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 585057011384 active site 585057011385 catalytic residues [active] 585057011386 metal binding site [ion binding]; metal-binding site 585057011387 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 585057011388 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 585057011389 putative active site [active] 585057011390 substrate binding site [chemical binding]; other site 585057011391 putative cosubstrate binding site; other site 585057011392 catalytic site [active] 585057011393 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 585057011394 substrate binding site [chemical binding]; other site 585057011395 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 585057011396 putative RNA binding site [nucleotide binding]; other site 585057011397 16S rRNA methyltransferase B; Provisional; Region: PRK10901 585057011398 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 585057011399 S-adenosylmethionine binding site [chemical binding]; other site 585057011400 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 585057011401 TrkA-N domain; Region: TrkA_N; pfam02254 585057011402 TrkA-C domain; Region: TrkA_C; pfam02080 585057011403 TrkA-N domain; Region: TrkA_N; pfam02254 585057011404 TrkA-C domain; Region: TrkA_C; pfam02080 585057011405 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 585057011406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 585057011407 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 585057011408 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 585057011409 DNA binding residues [nucleotide binding] 585057011410 dimer interface [polypeptide binding]; other site 585057011411 metal binding site [ion binding]; metal-binding site 585057011412 hypothetical protein; Provisional; Region: PRK10203 585057011413 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 585057011414 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 585057011415 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 585057011416 alphaNTD homodimer interface [polypeptide binding]; other site 585057011417 alphaNTD - beta interaction site [polypeptide binding]; other site 585057011418 alphaNTD - beta' interaction site [polypeptide binding]; other site 585057011419 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 585057011420 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 585057011421 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 585057011422 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 585057011423 RNA binding surface [nucleotide binding]; other site 585057011424 30S ribosomal protein S11; Validated; Region: PRK05309 585057011425 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 585057011426 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 585057011427 SecY translocase; Region: SecY; pfam00344 585057011428 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 585057011429 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 585057011430 23S rRNA binding site [nucleotide binding]; other site 585057011431 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 585057011432 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 585057011433 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 585057011434 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 585057011435 23S rRNA interface [nucleotide binding]; other site 585057011436 5S rRNA interface [nucleotide binding]; other site 585057011437 L27 interface [polypeptide binding]; other site 585057011438 L5 interface [polypeptide binding]; other site 585057011439 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 585057011440 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 585057011441 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 585057011442 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 585057011443 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 585057011444 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 585057011445 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 585057011446 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 585057011447 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 585057011448 RNA binding site [nucleotide binding]; other site 585057011449 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 585057011450 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 585057011451 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 585057011452 23S rRNA interface [nucleotide binding]; other site 585057011453 putative translocon interaction site; other site 585057011454 signal recognition particle (SRP54) interaction site; other site 585057011455 L23 interface [polypeptide binding]; other site 585057011456 trigger factor interaction site; other site 585057011457 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 585057011458 23S rRNA interface [nucleotide binding]; other site 585057011459 5S rRNA interface [nucleotide binding]; other site 585057011460 putative antibiotic binding site [chemical binding]; other site 585057011461 L25 interface [polypeptide binding]; other site 585057011462 L27 interface [polypeptide binding]; other site 585057011463 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 585057011464 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 585057011465 G-X-X-G motif; other site 585057011466 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 585057011467 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 585057011468 protein-rRNA interface [nucleotide binding]; other site 585057011469 putative translocon binding site; other site 585057011470 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 585057011471 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 585057011472 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 585057011473 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 585057011474 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 585057011475 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 585057011476 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 585057011477 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 585057011478 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 585057011479 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 585057011480 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 585057011481 Ferritin-like domain; Region: Ferritin; pfam00210 585057011482 heme binding site [chemical binding]; other site 585057011483 ferroxidase pore; other site 585057011484 ferroxidase diiron center [ion binding]; other site 585057011485 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 585057011486 elongation factor Tu; Reviewed; Region: PRK00049 585057011487 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 585057011488 G1 box; other site 585057011489 GEF interaction site [polypeptide binding]; other site 585057011490 GTP/Mg2+ binding site [chemical binding]; other site 585057011491 Switch I region; other site 585057011492 G2 box; other site 585057011493 G3 box; other site 585057011494 Switch II region; other site 585057011495 G4 box; other site 585057011496 G5 box; other site 585057011497 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 585057011498 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 585057011499 Antibiotic Binding Site [chemical binding]; other site 585057011500 elongation factor G; Reviewed; Region: PRK00007 585057011501 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 585057011502 G1 box; other site 585057011503 putative GEF interaction site [polypeptide binding]; other site 585057011504 GTP/Mg2+ binding site [chemical binding]; other site 585057011505 Switch I region; other site 585057011506 G2 box; other site 585057011507 G3 box; other site 585057011508 Switch II region; other site 585057011509 G4 box; other site 585057011510 G5 box; other site 585057011511 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 585057011512 Elongation Factor G, domain II; Region: EFG_II; pfam14492 585057011513 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 585057011514 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 585057011515 30S ribosomal protein S7; Validated; Region: PRK05302 585057011516 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 585057011517 S17 interaction site [polypeptide binding]; other site 585057011518 S8 interaction site; other site 585057011519 16S rRNA interaction site [nucleotide binding]; other site 585057011520 streptomycin interaction site [chemical binding]; other site 585057011521 23S rRNA interaction site [nucleotide binding]; other site 585057011522 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 585057011523 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 585057011524 sulfur relay protein TusC; Validated; Region: PRK00211 585057011525 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 585057011526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 585057011527 YheO-like PAS domain; Region: PAS_6; pfam08348 585057011528 HTH domain; Region: HTH_22; pfam13309 585057011529 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 585057011530 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 585057011531 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 585057011532 phi X174 lysis protein; Provisional; Region: PRK02793 585057011533 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 585057011534 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 585057011535 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 585057011536 fragment of potassium:proton antiporter (part 2);Evidence 7 : Gene remnant; Product type t : transporter 585057011537 fragment of potassium:proton antiporter (part 1);Evidence 7 : Gene remnant; Product type t : transporter 585057011538 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 585057011539 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 585057011540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057011541 ABC transporter; Region: ABC_tran_2; pfam12848 585057011542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057011543 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 585057011544 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 585057011545 putative hydrolase; Provisional; Region: PRK10985 585057011546 hypothetical protein; Provisional; Region: PRK04966 585057011547 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 585057011548 active site 585057011549 hypothetical protein; Provisional; Region: PRK10738 585057011550 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 585057011551 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 585057011552 ligand binding site [chemical binding]; other site 585057011553 flexible hinge region; other site 585057011554 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 585057011555 putative switch regulator; other site 585057011556 non-specific DNA interactions [nucleotide binding]; other site 585057011557 DNA binding site [nucleotide binding] 585057011558 sequence specific DNA binding site [nucleotide binding]; other site 585057011559 putative cAMP binding site [chemical binding]; other site 585057011560 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 585057011561 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 585057011562 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 585057011563 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 585057011564 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 585057011565 inhibitor-cofactor binding pocket; inhibition site 585057011566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057011567 catalytic residue [active] 585057011568 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 585057011569 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 585057011570 glutamine binding [chemical binding]; other site 585057011571 catalytic triad [active] 585057011572 cell filamentation protein Fic; Provisional; Region: PRK10347 585057011573 Protein of unknown function (DUF2559); Region: DUF2559; pfam10832 585057011574 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 585057011575 substrate binding site [chemical binding]; other site 585057011576 putative transporter; Provisional; Region: PRK03699 585057011577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057011578 putative substrate translocation pore; other site 585057011579 nitrite reductase subunit NirD; Provisional; Region: PRK14989 585057011580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057011581 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 585057011582 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 585057011583 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 585057011584 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 585057011585 nitrite transporter NirC; Provisional; Region: PRK11562 585057011586 siroheme synthase; Provisional; Region: cysG; PRK10637 585057011587 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 585057011588 Sirohaem biosynthesis protein central; Region: Sirohm_synth_M; pfam14824 585057011589 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 585057011590 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 585057011591 active site 585057011592 SAM binding site [chemical binding]; other site 585057011593 homodimer interface [polypeptide binding]; other site 585057011594 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 585057011595 pyridoxal phosphate enzyme, MJ0158 family; Region: pyridox_MJ0158; TIGR03576 585057011596 Protein of unknown function; Region: YhfT; pfam10797 585057011597 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 585057011598 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 585057011599 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 585057011600 active site 585057011601 substrate binding pocket [chemical binding]; other site 585057011602 homodimer interaction site [polypeptide binding]; other site 585057011603 putative mutase; Provisional; Region: PRK12383 585057011604 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 585057011605 dimer interface [polypeptide binding]; other site 585057011606 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 585057011607 active site 585057011608 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057011609 substrate binding site [chemical binding]; other site 585057011610 catalytic residue [active] 585057011611 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 585057011612 Helix-turn-helix domain; Region: HTH_41; pfam14502 585057011613 YhfZ C-terminal domain; Region: YhfZ_C; pfam14503 585057011614 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 585057011615 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 585057011616 active site 585057011617 HIGH motif; other site 585057011618 dimer interface [polypeptide binding]; other site 585057011619 KMSKS motif; other site 585057011620 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057011621 phosphoglycolate phosphatase; Provisional; Region: PRK13222 585057011622 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 585057011623 motif II; other site 585057011624 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 585057011625 substrate binding site [chemical binding]; other site 585057011626 hexamer interface [polypeptide binding]; other site 585057011627 metal binding site [ion binding]; metal-binding site 585057011628 DNA adenine methylase; Provisional; Region: PRK10904 585057011629 cell division protein DamX; Validated; Region: PRK10905 585057011630 Sporulation related domain; Region: SPOR; pfam05036 585057011631 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 585057011632 active site 585057011633 dimer interface [polypeptide binding]; other site 585057011634 metal binding site [ion binding]; metal-binding site 585057011635 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 585057011636 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 585057011637 ADP binding site [chemical binding]; other site 585057011638 magnesium binding site [ion binding]; other site 585057011639 putative shikimate binding site; other site 585057011640 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 585057011641 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 585057011642 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 585057011643 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 585057011644 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 585057011645 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 585057011646 Transglycosylase; Region: Transgly; pfam00912 585057011647 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 585057011648 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 585057011649 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 585057011650 ADP-ribose binding site [chemical binding]; other site 585057011651 dimer interface [polypeptide binding]; other site 585057011652 active site 585057011653 nudix motif; other site 585057011654 metal binding site [ion binding]; metal-binding site 585057011655 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 585057011656 GMP/IMP nucleotidase; Provisional; Region: PRK14988 585057011657 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 585057011658 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 585057011659 motif II; other site 585057011660 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 585057011661 RNA binding surface [nucleotide binding]; other site 585057011662 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 585057011663 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 585057011664 dimerization interface [polypeptide binding]; other site 585057011665 domain crossover interface; other site 585057011666 redox-dependent activation switch; other site 585057011667 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 585057011668 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 585057011669 active site 585057011670 substrate-binding site [chemical binding]; other site 585057011671 metal-binding site [ion binding] 585057011672 ATP binding site [chemical binding]; other site 585057011673 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 585057011674 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 585057011675 non-specific DNA binding site [nucleotide binding]; other site 585057011676 salt bridge; other site 585057011677 sequence-specific DNA binding site [nucleotide binding]; other site 585057011678 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 585057011679 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 585057011680 dimerization interface [polypeptide binding]; other site 585057011681 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 585057011682 dimer interface [polypeptide binding]; other site 585057011683 phosphorylation site [posttranslational modification] 585057011684 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 585057011685 ATP binding site [chemical binding]; other site 585057011686 Mg2+ binding site [ion binding]; other site 585057011687 G-X-G motif; other site 585057011688 osmolarity response regulator; Provisional; Region: ompR; PRK09468 585057011689 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 585057011690 active site 585057011691 phosphorylation site [posttranslational modification] 585057011692 intermolecular recognition site; other site 585057011693 dimerization interface [polypeptide binding]; other site 585057011694 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 585057011695 DNA binding site [nucleotide binding] 585057011696 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 585057011697 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 585057011698 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 585057011699 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 585057011700 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 585057011701 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 585057011702 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 585057011703 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 585057011704 RNA binding site [nucleotide binding]; other site 585057011705 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 585057011706 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 585057011707 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 585057011708 G1 box; other site 585057011709 GTP/Mg2+ binding site [chemical binding]; other site 585057011710 Switch I region; other site 585057011711 G2 box; other site 585057011712 G3 box; other site 585057011713 Switch II region; other site 585057011714 G4 box; other site 585057011715 G5 box; other site 585057011716 Nucleoside recognition; Region: Gate; pfam07670 585057011717 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 585057011718 Nucleoside recognition; Region: Gate; pfam07670 585057011719 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 585057011720 putative transposase; Provisional; Region: PRK09857 585057011721 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 585057011722 carboxylesterase BioH; Provisional; Region: PRK10349 585057011723 Putative lysophospholipase; Region: Hydrolase_4; cl19140 585057011724 Putative lysophospholipase; Region: Hydrolase_4; cl19140 585057011725 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 585057011726 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057011727 active site 585057011728 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 585057011729 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 585057011730 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 585057011731 high-affinity gluconate transporter; Provisional; Region: PRK14984 585057011732 GntP family permease; Region: GntP_permease; pfam02447 585057011733 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 585057011734 4-alpha-glucanotransferase; Region: malQ; TIGR00217 585057011735 maltodextrin phosphorylase; Provisional; Region: PRK14985 585057011736 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 585057011737 homodimer interface [polypeptide binding]; other site 585057011738 active site pocket [active] 585057011739 transcriptional regulator MalT; Provisional; Region: PRK04841 585057011740 AAA ATPase domain; Region: AAA_16; pfam13191 585057011741 Cohesin loading factor; Region: Cohesin_load; pfam10345 585057011742 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 585057011743 DNA binding residues [nucleotide binding] 585057011744 dimerization interface [polypeptide binding]; other site 585057011745 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 585057011746 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 585057011747 putative active site [active] 585057011748 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 585057011749 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 585057011750 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 585057011751 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 585057011752 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 585057011753 Walker A motif; other site 585057011754 ATP binding site [chemical binding]; other site 585057011755 Walker B motif; other site 585057011756 arginine finger; other site 585057011757 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 585057011758 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057011759 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057011760 intramembrane serine protease GlpG; Provisional; Region: PRK10907 585057011761 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 585057011762 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 585057011763 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 585057011764 active site residue [active] 585057011765 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 585057011766 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 585057011767 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 585057011768 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 585057011769 glycogen phosphorylase; Provisional; Region: PRK14986 585057011770 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 585057011771 homodimer interface [polypeptide binding]; other site 585057011772 active site pocket [active] 585057011773 glycogen synthase; Provisional; Region: glgA; PRK00654 585057011774 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 585057011775 ADP-binding pocket [chemical binding]; other site 585057011776 homodimer interface [polypeptide binding]; other site 585057011777 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 585057011778 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 585057011779 ligand binding site; other site 585057011780 oligomer interface; other site 585057011781 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 585057011782 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 585057011783 dimer interface [polypeptide binding]; other site 585057011784 N-terminal domain interface [polypeptide binding]; other site 585057011785 sulfate 1 binding site; other site 585057011786 glycogen debranching enzyme; Provisional; Region: PRK03705 585057011787 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 585057011788 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 585057011789 active site 585057011790 catalytic site [active] 585057011791 glycogen branching enzyme; Provisional; Region: PRK05402 585057011792 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 585057011793 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 585057011794 active site 585057011795 catalytic site [active] 585057011796 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 585057011797 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 585057011798 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 585057011799 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 585057011800 putative antibiotic transporter; Provisional; Region: PRK10739 585057011801 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 585057011802 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 585057011803 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 585057011804 non-specific DNA interactions [nucleotide binding]; other site 585057011805 DNA binding site [nucleotide binding] 585057011806 sequence specific DNA binding site [nucleotide binding]; other site 585057011807 putative cAMP binding site [chemical binding]; other site 585057011808 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 585057011809 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 585057011810 ATP binding site [chemical binding]; other site 585057011811 putative Mg++ binding site [ion binding]; other site 585057011812 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 585057011813 nucleotide binding region [chemical binding]; other site 585057011814 ATP-binding site [chemical binding]; other site 585057011815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057011816 active site 585057011817 low affinity gluconate transporter; Provisional; Region: PRK10472 585057011818 GntP family permease; Region: GntP_permease; pfam02447 585057011819 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 585057011820 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 585057011821 ATP-binding site [chemical binding]; other site 585057011822 Gluconate-6-phosphate binding site [chemical binding]; other site 585057011823 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 585057011824 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057011825 DNA binding site [nucleotide binding] 585057011826 domain linker motif; other site 585057011827 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 585057011828 putative ligand binding site [chemical binding]; other site 585057011829 putative dimerization interface [polypeptide binding]; other site 585057011830 Pirin-related protein [General function prediction only]; Region: COG1741 585057011831 Pirin; Region: Pirin; pfam02678 585057011832 putative oxidoreductase; Provisional; Region: PRK10206 585057011833 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057011834 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585057011835 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 585057011836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057011837 Coenzyme A binding pocket [chemical binding]; other site 585057011838 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 585057011839 Immunity protein 19; Region: Imm19; pfam15567 585057011840 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 585057011841 hypothetical protein; Provisional; Region: PRK10350 585057011842 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 585057011843 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 585057011844 putative active site [active] 585057011845 catalytic site [active] 585057011846 putative metal binding site [ion binding]; other site 585057011847 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 585057011848 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 585057011849 Walker A/P-loop; other site 585057011850 ATP binding site [chemical binding]; other site 585057011851 Q-loop/lid; other site 585057011852 ABC transporter signature motif; other site 585057011853 Walker B; other site 585057011854 D-loop; other site 585057011855 H-loop/switch region; other site 585057011856 TOBE domain; Region: TOBE_2; pfam08402 585057011857 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 585057011858 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 585057011859 dimer interface [polypeptide binding]; other site 585057011860 conserved gate region; other site 585057011861 putative PBP binding loops; other site 585057011862 ABC-ATPase subunit interface; other site 585057011863 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 585057011864 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 585057011865 dimer interface [polypeptide binding]; other site 585057011866 conserved gate region; other site 585057011867 putative PBP binding loops; other site 585057011868 ABC-ATPase subunit interface; other site 585057011869 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 585057011870 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 585057011871 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 585057011872 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 585057011873 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 585057011874 binding surface 585057011875 TPR motif; other site 585057011876 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 585057011877 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 585057011878 Walker A/P-loop; other site 585057011879 ATP binding site [chemical binding]; other site 585057011880 Q-loop/lid; other site 585057011881 ABC transporter signature motif; other site 585057011882 Walker B; other site 585057011883 D-loop; other site 585057011884 H-loop/switch region; other site 585057011885 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 585057011886 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 585057011887 Walker A/P-loop; other site 585057011888 ATP binding site [chemical binding]; other site 585057011889 Q-loop/lid; other site 585057011890 ABC transporter signature motif; other site 585057011891 Walker B; other site 585057011892 D-loop; other site 585057011893 H-loop/switch region; other site 585057011894 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 585057011895 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 585057011896 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 585057011897 TM-ABC transporter signature motif; other site 585057011898 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 585057011899 TM-ABC transporter signature motif; other site 585057011900 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 585057011901 dimerization interface [polypeptide binding]; other site 585057011902 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 585057011903 ligand binding site [chemical binding]; other site 585057011904 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 585057011905 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 585057011906 dimerization interface [polypeptide binding]; other site 585057011907 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 585057011908 ligand binding site [chemical binding]; other site 585057011909 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 585057011910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057011911 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 585057011912 DNA binding residues [nucleotide binding] 585057011913 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 585057011914 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 585057011915 cell division protein FtsE; Provisional; Region: PRK10908 585057011916 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057011917 Walker A/P-loop; other site 585057011918 ATP binding site [chemical binding]; other site 585057011919 Q-loop/lid; other site 585057011920 ABC transporter signature motif; other site 585057011921 Walker B; other site 585057011922 D-loop; other site 585057011923 H-loop/switch region; other site 585057011924 Mitochondria Localisation Sequence; Region: AIF-MLS; pfam14962 585057011925 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 585057011926 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 585057011927 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 585057011928 P loop; other site 585057011929 GTP binding site [chemical binding]; other site 585057011930 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 585057011931 S-adenosylmethionine binding site [chemical binding]; other site 585057011932 hypothetical protein; Provisional; Region: PRK10910 585057011933 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 585057011934 Predicted membrane protein [Function unknown]; Region: COG3714 585057011935 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 585057011936 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 585057011937 metal-binding site [ion binding] 585057011938 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585057011939 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585057011940 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 585057011941 CPxP motif; other site 585057011942 hypothetical protein; Provisional; Region: PRK11212 585057011943 hypothetical protein; Provisional; Region: PRK11615 585057011944 major facilitator superfamily transporter; Provisional; Region: PRK05122 585057011945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057011946 putative substrate translocation pore; other site 585057011947 Domain of unknown function DUF20; Region: UPF0118; cl00465 585057011948 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 585057011949 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 585057011950 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 585057011951 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 585057011952 substrate binding site [chemical binding]; other site 585057011953 nickel transporter permease NikB; Provisional; Region: PRK10352 585057011954 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 585057011955 dimer interface [polypeptide binding]; other site 585057011956 conserved gate region; other site 585057011957 putative PBP binding loops; other site 585057011958 ABC-ATPase subunit interface; other site 585057011959 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 585057011960 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 585057011961 dimer interface [polypeptide binding]; other site 585057011962 conserved gate region; other site 585057011963 putative PBP binding loops; other site 585057011964 ABC-ATPase subunit interface; other site 585057011965 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 585057011966 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057011967 Walker A/P-loop; other site 585057011968 ATP binding site [chemical binding]; other site 585057011969 Q-loop/lid; other site 585057011970 ABC transporter signature motif; other site 585057011971 Walker B; other site 585057011972 D-loop; other site 585057011973 H-loop/switch region; other site 585057011974 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057011975 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 585057011976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057011977 Walker A/P-loop; other site 585057011978 ATP binding site [chemical binding]; other site 585057011979 Q-loop/lid; other site 585057011980 ABC transporter signature motif; other site 585057011981 Walker B; other site 585057011982 D-loop; other site 585057011983 H-loop/switch region; other site 585057011984 nickel responsive regulator; Provisional; Region: PRK02967 585057011985 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 585057011986 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 585057011987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057011988 DNA-binding site [nucleotide binding]; DNA binding site 585057011989 UTRA domain; Region: UTRA; pfam07702 585057011990 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 585057011991 active site 585057011992 phosphorylation site [posttranslational modification] 585057011993 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 585057011994 active site 585057011995 P-loop; other site 585057011996 phosphorylation site [posttranslational modification] 585057011997 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 585057011998 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 585057011999 uncharacterized subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_1; cd07774 585057012000 putative N- and C-terminal domain interface [polypeptide binding]; other site 585057012001 putative active site [active] 585057012002 putative MgATP binding site [chemical binding]; other site 585057012003 catalytic site [active] 585057012004 metal binding site [ion binding]; metal-binding site 585057012005 putative carbohydrate binding site [chemical binding]; other site 585057012006 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 585057012007 dimerization domain swap beta strand [polypeptide binding]; other site 585057012008 regulatory protein interface [polypeptide binding]; other site 585057012009 active site 585057012010 regulatory phosphorylation site [posttranslational modification]; other site 585057012011 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 585057012012 intersubunit interface [polypeptide binding]; other site 585057012013 active site 585057012014 zinc binding site [ion binding]; other site 585057012015 Na+ binding site [ion binding]; other site 585057012016 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 585057012017 HicB family; Region: HicB; pfam05534 585057012018 Structural glycoprotein p40/gp41 conserved region; Region: Baculo_gp41; pfam04700 585057012019 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 585057012020 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 585057012021 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 585057012022 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 585057012023 Walker A/P-loop; other site 585057012024 ATP binding site [chemical binding]; other site 585057012025 Q-loop/lid; other site 585057012026 ABC transporter signature motif; other site 585057012027 Walker B; other site 585057012028 D-loop; other site 585057012029 H-loop/switch region; other site 585057012030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057012031 Walker A/P-loop; other site 585057012032 ATP binding site [chemical binding]; other site 585057012033 Q-loop/lid; other site 585057012034 ABC transporter signature motif; other site 585057012035 Walker B; other site 585057012036 D-loop; other site 585057012037 H-loop/switch region; other site 585057012038 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 585057012039 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 585057012040 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 585057012041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057012042 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057012043 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 585057012044 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057012045 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057012046 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057012047 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 585057012048 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 585057012049 Predicted flavoproteins [General function prediction only]; Region: COG2081 585057012050 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057012051 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 585057012052 universal stress protein UspB; Provisional; Region: PRK04960 585057012053 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 585057012054 Ligand Binding Site [chemical binding]; other site 585057012055 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 585057012056 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012057 putative substrate translocation pore; other site 585057012058 putative methyltransferase; Provisional; Region: PRK10742 585057012059 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 585057012060 S-adenosylmethionine binding site [chemical binding]; other site 585057012061 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 585057012062 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 585057012063 active site 585057012064 Zn binding site [ion binding]; other site 585057012065 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 585057012066 glutathione reductase; Validated; Region: PRK06116 585057012067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 585057012068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 585057012069 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 585057012070 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 585057012071 dimerization interface [polypeptide binding]; other site 585057012072 putative DNA binding site [nucleotide binding]; other site 585057012073 putative Zn2+ binding site [ion binding]; other site 585057012074 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 585057012075 Citrate transporter; Region: CitMHS; pfam03600 585057012076 transmembrane helices; other site 585057012077 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 585057012078 catalytic residues [active] 585057012079 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 585057012080 dimerization interface [polypeptide binding]; other site 585057012081 putative DNA binding site [nucleotide binding]; other site 585057012082 putative Zn2+ binding site [ion binding]; other site 585057012083 Predicted permeases [General function prediction only]; Region: COG0701 585057012084 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 585057012085 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 585057012086 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 585057012087 DNA binding residues [nucleotide binding] 585057012088 dimerization interface [polypeptide binding]; other site 585057012089 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 585057012090 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 585057012091 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 585057012092 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 585057012093 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 585057012094 N-terminal plug; other site 585057012095 ligand-binding site [chemical binding]; other site 585057012096 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 585057012097 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 585057012098 putative hemin binding site; other site 585057012099 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 585057012100 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 585057012101 FeS/SAM binding site; other site 585057012102 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 585057012103 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 585057012104 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 585057012105 NAD(P) binding site [chemical binding]; other site 585057012106 putative active site [active] 585057012107 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 585057012108 ABC-ATPase subunit interface; other site 585057012109 dimer interface [polypeptide binding]; other site 585057012110 putative PBP binding regions; other site 585057012111 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 585057012112 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057012113 Walker A/P-loop; other site 585057012114 ATP binding site [chemical binding]; other site 585057012115 Q-loop/lid; other site 585057012116 ABC transporter signature motif; other site 585057012117 Walker B; other site 585057012118 D-loop; other site 585057012119 H-loop/switch region; other site 585057012120 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 585057012121 MgtC family; Region: MgtC; pfam02308 585057012122 acid-resistance protein; Provisional; Region: hdeB; PRK11566 585057012123 acid-resistance protein; Provisional; Region: PRK10208 585057012124 acid-resistance membrane protein; Provisional; Region: PRK10209 585057012125 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 585057012126 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 585057012127 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057012128 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057012129 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 585057012130 MMPL family; Region: MMPL; cl14618 585057012131 MMPL family; Region: MMPL; cl14618 585057012132 transcriptional regulator YdeO; Provisional; Region: PRK09940 585057012133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012134 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012135 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 585057012136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012138 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 585057012139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057012140 catalytic residue [active] 585057012141 Haem-binding domain; Region: Haem_bd; pfam14376 585057012142 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 585057012143 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 585057012144 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 585057012145 trehalase; Provisional; Region: treF; PRK13270 585057012146 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 585057012147 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 585057012148 DNA binding residues [nucleotide binding] 585057012149 dimerization interface [polypeptide binding]; other site 585057012150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057012151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057012152 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 585057012153 putative effector binding pocket; other site 585057012154 putative dimerization interface [polypeptide binding]; other site 585057012155 inner membrane protein YhjD; Region: TIGR00766 585057012156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012157 metabolite-proton symporter; Region: 2A0106; TIGR00883 585057012158 putative substrate translocation pore; other site 585057012159 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 585057012160 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585057012161 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 585057012162 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 585057012163 substrate binding site [chemical binding]; other site 585057012164 ATP binding site [chemical binding]; other site 585057012165 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 585057012166 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 585057012167 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 585057012168 putative diguanylate cyclase; Provisional; Region: PRK13561 585057012169 HAMP domain; Region: HAMP; pfam00672 585057012170 diguanylate cyclase; Region: GGDEF; smart00267 585057012171 metal binding site [ion binding]; metal-binding site 585057012172 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 585057012173 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 585057012174 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 585057012175 binding surface 585057012176 TPR motif; other site 585057012177 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 585057012178 binding surface 585057012179 TPR motif; other site 585057012180 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 585057012181 endo-1,4-D-glucanase; Provisional; Region: PRK11097 585057012182 cellulose synthase regulator protein; Provisional; Region: PRK11114 585057012183 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 585057012184 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 585057012185 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 585057012186 DXD motif; other site 585057012187 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 585057012188 PilZ domain; Region: PilZ; pfam07238 585057012189 cell division protein; Provisional; Region: PRK10037 585057012190 YhjQ protein; Region: YhjQ; pfam06564 585057012191 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 585057012192 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 585057012193 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 585057012194 fragment of putative endoglucanase involved in cellulose biosynthesis (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057012195 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057012196 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057012197 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057012198 fragment of putative endoglucanase involved in cellulose biosynthesis (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057012199 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057012200 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 585057012201 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 585057012202 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057012203 Walker A/P-loop; other site 585057012204 ATP binding site [chemical binding]; other site 585057012205 Q-loop/lid; other site 585057012206 ABC transporter signature motif; other site 585057012207 Walker B; other site 585057012208 D-loop; other site 585057012209 H-loop/switch region; other site 585057012210 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057012211 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 585057012212 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057012213 Walker A/P-loop; other site 585057012214 ATP binding site [chemical binding]; other site 585057012215 Q-loop/lid; other site 585057012216 ABC transporter signature motif; other site 585057012217 Walker B; other site 585057012218 D-loop; other site 585057012219 H-loop/switch region; other site 585057012220 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057012221 dipeptide transporter; Provisional; Region: PRK10913 585057012222 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 585057012223 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 585057012224 dimer interface [polypeptide binding]; other site 585057012225 conserved gate region; other site 585057012226 putative PBP binding loops; other site 585057012227 ABC-ATPase subunit interface; other site 585057012228 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 585057012229 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 585057012230 dimer interface [polypeptide binding]; other site 585057012231 conserved gate region; other site 585057012232 putative PBP binding loops; other site 585057012233 ABC-ATPase subunit interface; other site 585057012234 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 585057012235 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 585057012236 peptide binding site [polypeptide binding]; other site 585057012237 phosphoethanolamine transferase; Provisional; Region: PRK11560 585057012238 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 585057012239 Sulfatase; Region: Sulfatase; pfam00884 585057012240 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 585057012241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012242 putative substrate translocation pore; other site 585057012243 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 585057012244 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 585057012245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 585057012246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057012247 Coenzyme A binding pocket [chemical binding]; other site 585057012248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 585057012249 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 585057012250 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 585057012251 molybdopterin cofactor binding site [chemical binding]; other site 585057012252 substrate binding site [chemical binding]; other site 585057012253 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 585057012254 molybdopterin cofactor binding site; other site 585057012255 putative outer membrane lipoprotein; Provisional; Region: PRK10510 585057012256 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 585057012257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 585057012258 ligand binding site [chemical binding]; other site 585057012259 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 585057012260 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 585057012261 dimerization interface [polypeptide binding]; other site 585057012262 ligand binding site [chemical binding]; other site 585057012263 NADP binding site [chemical binding]; other site 585057012264 catalytic site [active] 585057012265 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 585057012266 Predicted transcriptional regulator [Transcription]; Region: COG2944 585057012267 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 585057012268 non-specific DNA binding site [nucleotide binding]; other site 585057012269 salt bridge; other site 585057012270 sequence-specific DNA binding site [nucleotide binding]; other site 585057012271 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 585057012272 DNA-binding site [nucleotide binding]; DNA binding site 585057012273 RNA-binding motif; other site 585057012274 putative transposase OrfB; Reviewed; Region: PHA02517 585057012275 HTH-like domain; Region: HTH_21; pfam13276 585057012276 Integrase core domain; Region: rve; pfam00665 585057012277 Integrase core domain; Region: rve_2; pfam13333 585057012278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057012279 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057012280 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057012281 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 585057012282 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 585057012283 DALR anticodon binding domain; Region: DALR_1; pfam05746 585057012284 anticodon binding site; other site 585057012285 tRNA binding surface [nucleotide binding]; other site 585057012286 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 585057012287 dimer interface [polypeptide binding]; other site 585057012288 motif 1; other site 585057012289 active site 585057012290 motif 2; other site 585057012291 motif 3; other site 585057012292 YsaB-like lipoprotein; Region: YsaB; pfam13983 585057012293 hypothetical protein; putative membrane protein (fragment);Evidence 7 : Gene remnant 585057012294 putative transposase OrfB; Reviewed; Region: PHA02517 585057012295 HTH-like domain; Region: HTH_21; pfam13276 585057012296 Integrase core domain; Region: rve; pfam00665 585057012297 Integrase core domain; Region: rve_3; pfam13683 585057012298 Transposase; Region: HTH_Tnp_1; cl17663 585057012299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057012300 fragment of conserved hypothetical protein; putative inner membrane protein (partial);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057012301 hypothetical protein; Provisional; Region: PRK11383 585057012302 yiaA/B two helix domain; Region: YiaAB; pfam05360 585057012303 yiaA/B two helix domain; Region: YiaAB; pfam05360 585057012304 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057012305 xylulokinase; Provisional; Region: PRK15027 585057012306 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 585057012307 N- and C-terminal domain interface [polypeptide binding]; other site 585057012308 active site 585057012309 MgATP binding site [chemical binding]; other site 585057012310 catalytic site [active] 585057012311 metal binding site [ion binding]; metal-binding site 585057012312 xylulose binding site [chemical binding]; other site 585057012313 homodimer interface [polypeptide binding]; other site 585057012314 xylose isomerase; Provisional; Region: PRK05474 585057012315 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 585057012316 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 585057012317 putative ligand binding site [chemical binding]; other site 585057012318 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 585057012319 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057012320 Walker A/P-loop; other site 585057012321 ATP binding site [chemical binding]; other site 585057012322 Q-loop/lid; other site 585057012323 ABC transporter signature motif; other site 585057012324 Walker B; other site 585057012325 D-loop; other site 585057012326 H-loop/switch region; other site 585057012327 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057012328 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 585057012329 TM-ABC transporter signature motif; other site 585057012330 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 585057012331 putative dimerization interface [polypeptide binding]; other site 585057012332 Transcriptional regulators [Transcription]; Region: PurR; COG1609 585057012333 putative ligand binding site [chemical binding]; other site 585057012334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057012336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012337 hypothetical protein; Provisional; Region: PRK10356 585057012338 Lysozyme subfamily 2; Region: LYZ2; smart00047 585057012339 alpha-amylase; Reviewed; Region: malS; PRK09505 585057012340 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 585057012341 active site 585057012342 catalytic site [active] 585057012343 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 585057012344 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 585057012345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057012346 homodimer interface [polypeptide binding]; other site 585057012347 catalytic residue [active] 585057012348 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 585057012349 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057012350 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 585057012351 Transcriptional regulator [Transcription]; Region: IclR; COG1414 585057012352 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 585057012353 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057012354 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 585057012355 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 585057012356 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 585057012357 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 585057012358 DctM-like transporters; Region: DctM; pfam06808 585057012359 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 585057012360 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 585057012361 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 585057012362 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 585057012363 putative N- and C-terminal domain interface [polypeptide binding]; other site 585057012364 putative active site [active] 585057012365 MgATP binding site [chemical binding]; other site 585057012366 catalytic site [active] 585057012367 metal binding site [ion binding]; metal-binding site 585057012368 putative xylulose binding site [chemical binding]; other site 585057012369 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 585057012370 active site 585057012371 dimer interface [polypeptide binding]; other site 585057012372 magnesium binding site [ion binding]; other site 585057012373 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 585057012374 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 585057012375 AP (apurinic/apyrimidinic) site pocket; other site 585057012376 DNA interaction; other site 585057012377 Metal-binding active site; metal-binding site 585057012378 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 585057012379 intersubunit interface [polypeptide binding]; other site 585057012380 active site 585057012381 Zn2+ binding site [ion binding]; other site 585057012382 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057012383 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 585057012384 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012385 putative symporter YagG; Provisional; Region: PRK09669; cl15392 585057012386 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 585057012387 conserved hypothetical protein (part 1);Evidence 4 : Homologs of previously reported genes of unknown function 585057012388 conserved hypothetical protein (part 2);Evidence 4 : Homologs of previously reported genes of unknown function 585057012389 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 585057012390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 585057012391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057012392 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 585057012393 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 585057012394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 585057012395 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057012396 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 585057012397 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 585057012398 NAD(P) binding site [chemical binding]; other site 585057012399 catalytic residues [active] 585057012400 Fic family protein [Function unknown]; Region: COG3177 585057012401 Fic/DOC family; Region: Fic; pfam02661 585057012402 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 585057012403 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 585057012404 dimer interface [polypeptide binding]; other site 585057012405 active site 585057012406 metal binding site [ion binding]; metal-binding site 585057012407 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 585057012408 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 585057012409 G1 box; other site 585057012410 putative GEF interaction site [polypeptide binding]; other site 585057012411 GTP/Mg2+ binding site [chemical binding]; other site 585057012412 Switch I region; other site 585057012413 G2 box; other site 585057012414 G3 box; other site 585057012415 Switch II region; other site 585057012416 G4 box; other site 585057012417 G5 box; other site 585057012418 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 585057012419 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 585057012420 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 585057012421 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 585057012422 selenocysteine synthase; Provisional; Region: PRK04311 585057012423 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 585057012424 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 585057012425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057012426 catalytic residue [active] 585057012427 fragment of putative glutathione S-transferase (part 2);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057012428 fragment of putative glutathione S-transferase (part 1);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057012429 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 585057012430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057012431 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057012432 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 585057012433 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 585057012434 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 585057012435 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 585057012436 active site 585057012437 P-loop; other site 585057012438 phosphorylation site [posttranslational modification] 585057012439 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 585057012440 active site 585057012441 phosphorylation site [posttranslational modification] 585057012442 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 585057012443 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 585057012444 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 585057012445 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 585057012446 hypothetical protein; Provisional; Region: PRK11020 585057012447 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 585057012448 putative adhesin (part 1);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure 585057012449 putative adhesin (part 2);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure 585057012450 L-lactate permease; Provisional; Region: PRK10420 585057012451 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 585057012452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057012453 DNA-binding site [nucleotide binding]; DNA binding site 585057012454 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057012455 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 585057012456 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 585057012457 active site 585057012458 substrate binding site [chemical binding]; other site 585057012459 FMN binding site [chemical binding]; other site 585057012460 putative catalytic residues [active] 585057012461 putative rRNA methylase; Provisional; Region: PRK10358 585057012462 serine acetyltransferase; Provisional; Region: cysE; PRK11132 585057012463 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 585057012464 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 585057012465 trimer interface [polypeptide binding]; other site 585057012466 active site 585057012467 substrate binding site [chemical binding]; other site 585057012468 CoA binding site [chemical binding]; other site 585057012469 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 585057012470 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 585057012471 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 585057012472 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 585057012473 SecA binding site; other site 585057012474 Preprotein binding site; other site 585057012475 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 585057012476 GSH binding site [chemical binding]; other site 585057012477 catalytic residues [active] 585057012478 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 585057012479 active site residue [active] 585057012480 phosphoglyceromutase; Provisional; Region: PRK05434 585057012481 AmiB activator; Provisional; Region: PRK11637 585057012482 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 585057012483 HemX; Region: HemX; cl19375 585057012484 Peptidase family M23; Region: Peptidase_M23; pfam01551 585057012485 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 585057012486 NodB motif; other site 585057012487 putative active site [active] 585057012488 putative catalytic site [active] 585057012489 Zn binding site [ion binding]; other site 585057012490 putative glycosyl transferase; Provisional; Region: PRK10073 585057012491 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 585057012492 active site 585057012493 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 585057012494 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 585057012495 NAD(P) binding site [chemical binding]; other site 585057012496 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 585057012497 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 585057012498 substrate-cofactor binding pocket; other site 585057012499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057012500 catalytic residue [active] 585057012501 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 585057012502 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 585057012503 NADP binding site [chemical binding]; other site 585057012504 homopentamer interface [polypeptide binding]; other site 585057012505 substrate binding site [chemical binding]; other site 585057012506 active site 585057012507 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 585057012508 putative active site [active] 585057012509 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 585057012510 putative active site [active] 585057012511 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 585057012512 O-Antigen ligase; Region: Wzy_C; pfam04932 585057012513 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 585057012514 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 585057012515 active site 585057012516 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 585057012517 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 585057012518 Ligand binding site; other site 585057012519 metal-binding site 585057012520 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 585057012521 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; pfam06176 585057012522 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 585057012523 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 585057012524 Ligand binding site; other site 585057012525 metal-binding site 585057012526 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 585057012527 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 585057012528 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 585057012529 Ligand binding site; other site 585057012530 metal-binding site 585057012531 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 585057012532 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 585057012533 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 585057012534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 585057012535 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 585057012536 putative active site [active] 585057012537 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 585057012538 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 585057012539 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 585057012540 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 585057012541 active site 585057012542 (T/H)XGH motif; other site 585057012543 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 585057012544 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 585057012545 DNA binding site [nucleotide binding] 585057012546 catalytic residue [active] 585057012547 H2TH interface [polypeptide binding]; other site 585057012548 putative catalytic residues [active] 585057012549 turnover-facilitating residue; other site 585057012550 intercalation triad [nucleotide binding]; other site 585057012551 8OG recognition residue [nucleotide binding]; other site 585057012552 putative reading head residues; other site 585057012553 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 585057012554 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 585057012555 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 585057012556 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 585057012557 hypothetical protein; Reviewed; Region: PRK00024 585057012558 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 585057012559 MPN+ (JAMM) motif; other site 585057012560 Zinc-binding site [ion binding]; other site 585057012561 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 585057012562 Flavoprotein; Region: Flavoprotein; cl19190 585057012563 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 585057012564 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 585057012565 trimer interface [polypeptide binding]; other site 585057012566 active site 585057012567 division inhibitor protein; Provisional; Region: slmA; PRK09480 585057012568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057012569 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 585057012570 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 585057012571 putative active site [active] 585057012572 putative NTP binding site [chemical binding]; other site 585057012573 putative nucleic acid binding site [nucleotide binding]; other site 585057012574 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 585057012575 active site 585057012576 ribonuclease PH; Reviewed; Region: rph; PRK00173 585057012577 Ribonuclease PH; Region: RNase_PH_bact; cd11362 585057012578 hexamer interface [polypeptide binding]; other site 585057012579 active site 585057012580 hypothetical protein; Provisional; Region: PRK11820 585057012581 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 585057012582 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 585057012583 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 585057012584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057012585 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 585057012586 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 585057012587 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057012588 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 585057012589 BRO family, N-terminal domain; Region: Bro-N; pfam02498 585057012590 Predicted membrane protein [Function unknown]; Region: COG2860 585057012591 UPF0126 domain; Region: UPF0126; pfam03458 585057012592 UPF0126 domain; Region: UPF0126; pfam03458 585057012593 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 585057012594 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 585057012595 nucleotide binding pocket [chemical binding]; other site 585057012596 K-X-D-G motif; other site 585057012597 catalytic site [active] 585057012598 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 585057012599 Guanylate kinase; Region: Guanylate_kin; pfam00625 585057012600 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 585057012601 catalytic site [active] 585057012602 G-X2-G-X-G-K; other site 585057012603 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 585057012604 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 585057012605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 585057012606 Zn2+ binding site [ion binding]; other site 585057012607 Mg2+ binding site [ion binding]; other site 585057012608 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 585057012609 synthetase active site [active] 585057012610 NTP binding site [chemical binding]; other site 585057012611 metal binding site [ion binding]; metal-binding site 585057012612 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 585057012613 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 585057012614 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 585057012615 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 585057012616 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 585057012617 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 585057012618 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 585057012619 generic binding surface II; other site 585057012620 ssDNA binding site; other site 585057012621 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 585057012622 ATP binding site [chemical binding]; other site 585057012623 putative Mg++ binding site [ion binding]; other site 585057012624 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 585057012625 nucleotide binding region [chemical binding]; other site 585057012626 ATP-binding site [chemical binding]; other site 585057012627 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 585057012628 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 585057012629 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057012630 AsmA family; Region: AsmA; pfam05170 585057012631 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 585057012632 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585057012633 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 585057012634 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 585057012635 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057012636 nucleotide binding site [chemical binding]; other site 585057012637 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 585057012638 intersubunit interface [polypeptide binding]; other site 585057012639 active site 585057012640 zinc binding site [ion binding]; other site 585057012641 Na+ binding site [ion binding]; other site 585057012642 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 585057012643 intersubunit interface [polypeptide binding]; other site 585057012644 active site 585057012645 zinc binding site [ion binding]; other site 585057012646 Na+ binding site [ion binding]; other site 585057012647 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 585057012648 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 585057012649 active site 585057012650 P-loop; other site 585057012651 phosphorylation site [posttranslational modification] 585057012652 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 585057012653 active site 585057012654 phosphorylation site [posttranslational modification] 585057012655 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 585057012656 HTH domain; Region: HTH_11; pfam08279 585057012657 Mga helix-turn-helix domain; Region: Mga; pfam05043 585057012658 PRD domain; Region: PRD; pfam00874 585057012659 PRD domain; Region: PRD; pfam00874 585057012660 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 585057012661 active site 585057012662 P-loop; other site 585057012663 phosphorylation site [posttranslational modification] 585057012664 putative alpha-glucosidase; Provisional; Region: PRK10658 585057012665 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 585057012666 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 585057012667 active site 585057012668 homotrimer interface [polypeptide binding]; other site 585057012669 catalytic site [active] 585057012670 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 585057012671 putative transporter; Provisional; Region: PRK11462 585057012672 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 585057012673 integrase; Provisional; Region: PRK09692 585057012674 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 585057012675 active site 585057012676 Int/Topo IB signature motif; other site 585057012677 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 585057012678 TPR motif; other site 585057012679 binding surface 585057012680 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 585057012681 Sulfatase; Region: Sulfatase; cl19157 585057012682 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 585057012683 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 585057012684 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 585057012685 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 585057012686 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 585057012687 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 585057012688 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 585057012689 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 585057012690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057012691 homodimer interface [polypeptide binding]; other site 585057012692 catalytic residue [active] 585057012693 Transposase; Region: HTH_Tnp_1; cl17663 585057012694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057012695 HTH-like domain; Region: HTH_21; pfam13276 585057012696 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 585057012697 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 585057012698 putative active site [active] 585057012699 putative NTP binding site [chemical binding]; other site 585057012700 putative nucleic acid binding site [nucleotide binding]; other site 585057012701 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 585057012702 Integrase core domain; Region: rve; pfam00665 585057012703 Integrase core domain; Region: rve_3; pfam13683 585057012704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057012705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057012706 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 585057012707 DNA binding site [nucleotide binding] 585057012708 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 585057012709 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057012710 Hexamer interface [polypeptide binding]; other site 585057012711 Hexagonal pore residue; other site 585057012712 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 585057012713 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057012714 Hexamer interface [polypeptide binding]; other site 585057012715 Hexagonal pore residue; other site 585057012716 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 585057012717 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057012718 Hexamer interface [polypeptide binding]; other site 585057012719 Hexagonal pore residue; other site 585057012720 fragment of fused acetaldehyde-CoA dehydrogenase ; iron-dependent alcohol dehydrogenase ; pyruvate-formate lyase deactivase (p;Evidence 7 : Gene remnant; Product type e : enzyme 585057012721 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cl01889 585057012722 Hexamer/Pentamer interface [polypeptide binding]; other site 585057012723 central pore; other site 585057012724 fragment of fused acetaldehyde-CoA dehydrogenase ; iron-dependent alcohol dehydrogenase ; pyruvate-formate lyase deactivase (p;Evidence 7 : Gene remnant; Product type e : enzyme 585057012725 Pyruvate formate lyase; Region: PFL; pfam02901 585057012726 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 585057012727 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 585057012728 dimer interface [polypeptide binding]; other site 585057012729 active site 585057012730 glycine loop; other site 585057012731 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 585057012732 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 585057012733 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 585057012734 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 585057012735 Hexamer interface [polypeptide binding]; other site 585057012736 Hexagonal pore residue; other site 585057012737 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 585057012738 Propanediol utilisation protein PduL; Region: PduL; pfam06130 585057012739 Propanediol utilisation protein PduL; Region: PduL; pfam06130 585057012740 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 585057012741 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 585057012742 Integrase core domain; Region: rve; pfam00665 585057012743 Integrase core domain; Region: rve_3; cl15866 585057012744 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 585057012745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057012746 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 585057012747 dimerization interface [polypeptide binding]; other site 585057012748 substrate binding pocket [chemical binding]; other site 585057012749 permease DsdX; Provisional; Region: PRK09921 585057012750 GntP family permease; Region: GntP_permease; pfam02447 585057012751 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 585057012752 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057012753 catalytic residue [active] 585057012754 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 585057012755 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 585057012756 putative kinase; Provisional; Region: PRK09954 585057012757 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 585057012758 putative DNA binding site [nucleotide binding]; other site 585057012759 putative Zn2+ binding site [ion binding]; other site 585057012760 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 585057012761 substrate binding site [chemical binding]; other site 585057012762 ATP binding site [chemical binding]; other site 585057012763 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 585057012764 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 585057012765 Nucleoside recognition; Region: Gate; pfam07670 585057012766 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 585057012767 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 585057012768 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 585057012769 substrate binding site [chemical binding]; other site 585057012770 ATP binding site [chemical binding]; other site 585057012771 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 585057012772 putative trimer interface [polypeptide binding]; other site 585057012773 putative active site [active] 585057012774 putative substrate binding site [chemical binding]; other site 585057012775 putative CoA binding site [chemical binding]; other site 585057012776 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 585057012777 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 585057012778 Predicted GTPase [General function prediction only]; Region: COG3596 585057012779 YfjP GTPase; Region: YfjP; cd11383 585057012780 G1 box; other site 585057012781 GTP/Mg2+ binding site [chemical binding]; other site 585057012782 Switch I region; other site 585057012783 G2 box; other site 585057012784 Switch II region; other site 585057012785 G3 box; other site 585057012786 G4 box; other site 585057012787 G5 box; other site 585057012788 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 585057012789 Domain of unknown function (DUF932); Region: DUF932; pfam06067 585057012790 Antirestriction protein; Region: Antirestrict; pfam03230 585057012791 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 585057012792 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 585057012793 MPN+ (JAMM) motif; other site 585057012794 Zinc-binding site [ion binding]; other site 585057012795 Protein of unknown function (DUF987); Region: DUF987; pfam06174 585057012796 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 585057012797 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 585057012798 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 585057012799 Methyltransferase domain; Region: Methyltransf_27; pfam13708 585057012800 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 585057012801 Virulence protein RhuM family; Region: Virulence_RhuM; cl19850 585057012802 sugar efflux transporter B; Provisional; Region: PRK15011 585057012803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012804 putative substrate translocation pore; other site 585057012805 EamA-like transporter family; Region: EamA; pfam00892 585057012806 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 585057012807 EamA-like transporter family; Region: EamA; pfam00892 585057012808 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 585057012809 chaperone protein SicA; Provisional; Region: PRK15331 585057012810 Tetratricopeptide repeat; Region: TPR_3; pfam07720 585057012811 Tetratricopeptide repeat; Region: TPR_3; pfam07720 585057012812 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 585057012813 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 585057012814 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 585057012815 invasion protein regulator; Provisional; Region: PRK12370 585057012816 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 585057012817 DNA binding site [nucleotide binding] 585057012818 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 585057012819 TPR motif; other site 585057012820 binding surface 585057012821 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 585057012822 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 585057012823 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 585057012824 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012825 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012826 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012827 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 585057012828 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012829 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012830 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012831 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012832 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012833 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 585057012834 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 585057012835 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 585057012836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012837 putative substrate translocation pore; other site 585057012838 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 585057012839 Predicted transcriptional regulator [Transcription]; Region: COG2944 585057012840 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 585057012841 non-specific DNA binding site [nucleotide binding]; other site 585057012842 salt bridge; other site 585057012843 sequence-specific DNA binding site [nucleotide binding]; other site 585057012844 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 585057012845 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 585057012846 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057012847 cryptic adenine deaminase; Provisional; Region: PRK10027 585057012848 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 585057012849 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 585057012850 active site 585057012851 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 585057012852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012853 putative substrate translocation pore; other site 585057012854 regulatory protein UhpC; Provisional; Region: PRK11663 585057012855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012856 putative substrate translocation pore; other site 585057012857 sensory histidine kinase UhpB; Provisional; Region: PRK11644 585057012858 MASE1; Region: MASE1; pfam05231 585057012859 Histidine kinase; Region: HisKA_3; pfam07730 585057012860 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 585057012861 ATP binding site [chemical binding]; other site 585057012862 Mg2+ binding site [ion binding]; other site 585057012863 G-X-G motif; other site 585057012864 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 585057012865 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 585057012866 active site 585057012867 phosphorylation site [posttranslational modification] 585057012868 intermolecular recognition site; other site 585057012869 dimerization interface [polypeptide binding]; other site 585057012870 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 585057012871 DNA binding residues [nucleotide binding] 585057012872 dimerization interface [polypeptide binding]; other site 585057012873 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 585057012874 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 585057012875 putative valine binding site [chemical binding]; other site 585057012876 dimer interface [polypeptide binding]; other site 585057012877 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 585057012878 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 585057012879 PYR/PP interface [polypeptide binding]; other site 585057012880 dimer interface [polypeptide binding]; other site 585057012881 TPP binding site [chemical binding]; other site 585057012882 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 585057012883 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 585057012884 TPP-binding site [chemical binding]; other site 585057012885 dimer interface [polypeptide binding]; other site 585057012886 ilvB operon leader peptide; Provisional; Region: PRK10214 585057012887 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 585057012888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012889 putative substrate translocation pore; other site 585057012890 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 585057012891 Domain of unknown function (DUF202); Region: DUF202; pfam02656 585057012892 Predicted membrane protein [Function unknown]; Region: COG2149 585057012893 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 585057012894 Sulfatase; Region: Sulfatase; pfam00884 585057012895 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 585057012896 Na binding site [ion binding]; other site 585057012897 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 585057012898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012899 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057012900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057012901 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 585057012902 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 585057012903 NAD binding site [chemical binding]; other site 585057012904 sugar binding site [chemical binding]; other site 585057012905 divalent metal binding site [ion binding]; other site 585057012906 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057012907 dimer interface [polypeptide binding]; other site 585057012908 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 585057012909 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 585057012910 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 585057012911 active site turn [active] 585057012912 phosphorylation site [posttranslational modification] 585057012913 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 585057012914 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057012915 DNA-binding site [nucleotide binding]; DNA binding site 585057012916 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 585057012917 putative transporter; Validated; Region: PRK03818 585057012918 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 585057012919 TrkA-C domain; Region: TrkA_C; pfam02080 585057012920 TrkA-C domain; Region: TrkA_C; pfam02080 585057012921 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 585057012922 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 585057012923 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 585057012924 putative dimer interface [polypeptide binding]; other site 585057012925 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 585057012926 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 585057012927 putative dimer interface [polypeptide binding]; other site 585057012928 hypothetical protein; Provisional; Region: PRK11616 585057012929 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 585057012930 putative oxidoreductase; Provisional; Region: PRK11445 585057012931 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 585057012932 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057012933 D-galactonate transporter; Region: 2A0114; TIGR00893 585057012934 putative substrate translocation pore; other site 585057012935 galactonate dehydratase; Provisional; Region: PRK14017 585057012936 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 585057012937 putative active site pocket [active] 585057012938 putative metal binding site [ion binding]; other site 585057012939 Entner-Doudoroff aldolase; Region: eda; TIGR01182 585057012940 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 585057012941 active site 585057012942 intersubunit interface [polypeptide binding]; other site 585057012943 catalytic residue [active] 585057012944 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 585057012945 Transcriptional regulators [Transcription]; Region: FadR; COG2186 585057012946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057012947 DNA-binding site [nucleotide binding]; DNA binding site 585057012948 FCD domain; Region: FCD; pfam07729 585057012949 hypothetical protein; Provisional; Region: PRK10215 585057012950 sugar phosphate phosphatase; Provisional; Region: PRK10513 585057012951 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 585057012952 active site 585057012953 motif I; other site 585057012954 motif II; other site 585057012955 hypothetical protein; Provisional; Region: PRK11426 585057012956 HTH-like domain; Region: HTH_21; pfam13276 585057012957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057012958 Integrase core domain; Region: rve; pfam00665 585057012959 Integrase core domain; Region: rve_2; pfam13333 585057012960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057012961 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057012962 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057012963 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057012964 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 585057012965 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 585057012966 ATP binding site [chemical binding]; other site 585057012967 Mg2+ binding site [ion binding]; other site 585057012968 G-X-G motif; other site 585057012969 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 585057012970 anchoring element; other site 585057012971 dimer interface [polypeptide binding]; other site 585057012972 ATP binding site [chemical binding]; other site 585057012973 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 585057012974 active site 585057012975 putative metal-binding site [ion binding]; other site 585057012976 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 585057012977 recF protein; Region: recf; TIGR00611 585057012978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057012979 Walker A/P-loop; other site 585057012980 ATP binding site [chemical binding]; other site 585057012981 Q-loop/lid; other site 585057012982 ABC transporter signature motif; other site 585057012983 Walker B; other site 585057012984 D-loop; other site 585057012985 H-loop/switch region; other site 585057012986 DNA polymerase III subunit beta; Validated; Region: PRK05643 585057012987 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 585057012988 putative DNA binding surface [nucleotide binding]; other site 585057012989 dimer interface [polypeptide binding]; other site 585057012990 beta-clamp/clamp loader binding surface; other site 585057012991 beta-clamp/translesion DNA polymerase binding surface; other site 585057012992 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 585057012993 DnaA N-terminal domain; Region: DnaA_N; pfam11638 585057012994 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 585057012995 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 585057012996 Walker A motif; other site 585057012997 ATP binding site [chemical binding]; other site 585057012998 Walker B motif; other site 585057012999 arginine finger; other site 585057013000 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 585057013001 DnaA box-binding interface [nucleotide binding]; other site 585057013002 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 585057013003 ribonuclease P; Reviewed; Region: rnpA; PRK01732 585057013004 hypothetical protein; Validated; Region: PRK00041 585057013005 membrane protein insertase; Provisional; Region: PRK01318 585057013006 YidC periplasmic domain; Region: YidC_periplas; pfam14849 585057013007 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 585057013008 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 585057013009 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 585057013010 trmE is a tRNA modification GTPase; Region: trmE; cd04164 585057013011 G1 box; other site 585057013012 GTP/Mg2+ binding site [chemical binding]; other site 585057013013 Switch I region; other site 585057013014 G2 box; other site 585057013015 Switch II region; other site 585057013016 G3 box; other site 585057013017 G4 box; other site 585057013018 G5 box; other site 585057013019 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 585057013020 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 585057013021 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 585057013022 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 585057013023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 585057013024 catalytic residue [active] 585057013025 tryptophan permease TnaB; Provisional; Region: PRK09664 585057013026 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 585057013027 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 585057013028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057013029 putative substrate translocation pore; other site 585057013030 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 585057013031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057013032 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 585057013033 substrate binding pocket [chemical binding]; other site 585057013034 dimerization interface [polypeptide binding]; other site 585057013035 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 585057013036 Predicted flavoprotein [General function prediction only]; Region: COG0431 585057013037 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 585057013038 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 585057013039 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 585057013040 active site 585057013041 motif I; other site 585057013042 motif II; other site 585057013043 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 585057013044 E3 ubiquitin-protein ligase SopA; Provisional; Region: PRK15377 585057013045 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 585057013046 Flagella accessory protein C (FlaC); Region: FlaC_arch; cl10488 585057013047 transcriptional regulator PhoU; Provisional; Region: PRK11115 585057013048 PhoU domain; Region: PhoU; pfam01895 585057013049 PhoU domain; Region: PhoU; pfam01895 585057013050 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 585057013051 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 585057013052 Walker A/P-loop; other site 585057013053 ATP binding site [chemical binding]; other site 585057013054 Q-loop/lid; other site 585057013055 ABC transporter signature motif; other site 585057013056 Walker B; other site 585057013057 D-loop; other site 585057013058 H-loop/switch region; other site 585057013059 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 585057013060 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 585057013061 dimer interface [polypeptide binding]; other site 585057013062 conserved gate region; other site 585057013063 putative PBP binding loops; other site 585057013064 ABC-ATPase subunit interface; other site 585057013065 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 585057013066 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 585057013067 dimer interface [polypeptide binding]; other site 585057013068 conserved gate region; other site 585057013069 putative PBP binding loops; other site 585057013070 ABC-ATPase subunit interface; other site 585057013071 phosphate ABC transporter periplasmic substrate-binding protein PstS; Provisional; Region: PRK10918 585057013072 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 585057013073 Fimbrial protein; Region: Fimbrial; cl01416 585057013074 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 585057013075 PapC N-terminal domain; Region: PapC_N; pfam13954 585057013076 Outer membrane usher protein; Region: Usher; pfam00577 585057013077 PapC C-terminal domain; Region: PapC_C; pfam13953 585057013078 fimbrial chaperone protein; Provisional; Region: lfpB; PRK15290 585057013079 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057013080 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057013081 fimbrial protein; Provisional; Region: lpfA; PRK15289 585057013082 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 585057013083 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 585057013084 glutaminase active site [active] 585057013085 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 585057013086 dimer interface [polypeptide binding]; other site 585057013087 active site 585057013088 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 585057013089 dimer interface [polypeptide binding]; other site 585057013090 active site 585057013091 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 585057013092 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 585057013093 Substrate binding site; other site 585057013094 Mg++ binding site; other site 585057013095 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 585057013096 active site 585057013097 substrate binding site [chemical binding]; other site 585057013098 CoA binding site [chemical binding]; other site 585057013099 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 585057013100 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 585057013101 gamma subunit interface [polypeptide binding]; other site 585057013102 epsilon subunit interface [polypeptide binding]; other site 585057013103 LBP interface [polypeptide binding]; other site 585057013104 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 585057013105 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 585057013106 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 585057013107 alpha subunit interaction interface [polypeptide binding]; other site 585057013108 Walker A motif; other site 585057013109 ATP binding site [chemical binding]; other site 585057013110 Walker B motif; other site 585057013111 inhibitor binding site; inhibition site 585057013112 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 585057013113 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 585057013114 core domain interface [polypeptide binding]; other site 585057013115 delta subunit interface [polypeptide binding]; other site 585057013116 epsilon subunit interface [polypeptide binding]; other site 585057013117 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 585057013118 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 585057013119 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 585057013120 beta subunit interaction interface [polypeptide binding]; other site 585057013121 Walker A motif; other site 585057013122 ATP binding site [chemical binding]; other site 585057013123 Walker B motif; other site 585057013124 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 585057013125 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 585057013126 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 585057013127 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 585057013128 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 585057013129 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 585057013130 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 585057013131 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 585057013132 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 585057013133 S-adenosylmethionine binding site [chemical binding]; other site 585057013134 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 585057013135 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 585057013136 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 585057013137 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 585057013138 FMN-binding protein MioC; Provisional; Region: PRK09004 585057013139 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 585057013140 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 585057013141 putative DNA binding site [nucleotide binding]; other site 585057013142 putative Zn2+ binding site [ion binding]; other site 585057013143 AsnC family; Region: AsnC_trans_reg; pfam01037 585057013144 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 585057013145 dimer interface [polypeptide binding]; other site 585057013146 active site 585057013147 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 585057013148 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 585057013149 metal ion-dependent adhesion site (MIDAS); other site 585057013150 regulatory ATPase RavA; Provisional; Region: PRK13531 585057013151 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 585057013152 Walker A motif; other site 585057013153 ATP binding site [chemical binding]; other site 585057013154 Walker B motif; other site 585057013155 arginine finger; other site 585057013156 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 585057013157 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057013158 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057013159 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057013160 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 585057013161 D-ribose pyranase; Provisional; Region: PRK11797 585057013162 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 585057013163 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057013164 Walker A/P-loop; other site 585057013165 ATP binding site [chemical binding]; other site 585057013166 Q-loop/lid; other site 585057013167 ABC transporter signature motif; other site 585057013168 Walker B; other site 585057013169 D-loop; other site 585057013170 H-loop/switch region; other site 585057013171 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057013172 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 585057013173 TM-ABC transporter signature motif; other site 585057013174 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 585057013175 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 585057013176 ligand binding site [chemical binding]; other site 585057013177 dimerization interface [polypeptide binding]; other site 585057013178 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 585057013179 substrate binding site [chemical binding]; other site 585057013180 dimer interface [polypeptide binding]; other site 585057013181 ATP binding site [chemical binding]; other site 585057013182 transcriptional repressor RbsR; Provisional; Region: PRK10423 585057013183 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057013184 DNA binding site [nucleotide binding] 585057013185 domain linker motif; other site 585057013186 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 585057013187 dimerization interface [polypeptide binding]; other site 585057013188 ligand binding site [chemical binding]; other site 585057013189 putative transporter; Provisional; Region: PRK10504 585057013190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057013191 putative substrate translocation pore; other site 585057013192 Transcriptional regulators [Transcription]; Region: FadR; COG2186 585057013193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057013194 DNA-binding site [nucleotide binding]; DNA binding site 585057013195 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057013196 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 585057013197 FAD binding domain; Region: FAD_binding_4; pfam01565 585057013198 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 585057013199 Biotin operon repressor [Transcription]; Region: BirA; COG1654 585057013200 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 585057013201 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 585057013202 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 585057013203 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 585057013204 ATP-binding site [chemical binding]; other site 585057013205 CoA-binding site [chemical binding]; other site 585057013206 Mg2+-binding site [ion binding]; other site 585057013207 elongation factor Tu; Reviewed; Region: PRK00049 585057013208 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 585057013209 G1 box; other site 585057013210 GEF interaction site [polypeptide binding]; other site 585057013211 GTP/Mg2+ binding site [chemical binding]; other site 585057013212 Switch I region; other site 585057013213 G2 box; other site 585057013214 G3 box; other site 585057013215 Switch II region; other site 585057013216 G4 box; other site 585057013217 G5 box; other site 585057013218 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 585057013219 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 585057013220 Antibiotic Binding Site [chemical binding]; other site 585057013221 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 585057013222 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 585057013223 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 585057013224 putative homodimer interface [polypeptide binding]; other site 585057013225 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 585057013226 heterodimer interface [polypeptide binding]; other site 585057013227 homodimer interface [polypeptide binding]; other site 585057013228 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 585057013229 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 585057013230 23S rRNA interface [nucleotide binding]; other site 585057013231 L7/L12 interface [polypeptide binding]; other site 585057013232 putative thiostrepton binding site; other site 585057013233 L25 interface [polypeptide binding]; other site 585057013234 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 585057013235 mRNA/rRNA interface [nucleotide binding]; other site 585057013236 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 585057013237 23S rRNA interface [nucleotide binding]; other site 585057013238 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 585057013239 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 585057013240 core dimer interface [polypeptide binding]; other site 585057013241 peripheral dimer interface [polypeptide binding]; other site 585057013242 L10 interface [polypeptide binding]; other site 585057013243 L11 interface [polypeptide binding]; other site 585057013244 putative EF-Tu interaction site [polypeptide binding]; other site 585057013245 putative EF-G interaction site [polypeptide binding]; other site 585057013246 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 585057013247 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 585057013248 RPB12 interaction site [polypeptide binding]; other site 585057013249 RPB1 interaction site [polypeptide binding]; other site 585057013250 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 585057013251 RPB10 interaction site [polypeptide binding]; other site 585057013252 RPB11 interaction site [polypeptide binding]; other site 585057013253 RPB3 interaction site [polypeptide binding]; other site 585057013254 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 585057013255 beta and beta' interface [polypeptide binding]; other site 585057013256 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 585057013257 beta' and sigma factor interface [polypeptide binding]; other site 585057013258 Zn-binding [ion binding]; other site 585057013259 active site region [active] 585057013260 catalytic site [active] 585057013261 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 585057013262 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 585057013263 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 585057013264 G-loop; other site 585057013265 DNA binding site [nucleotide binding] 585057013266 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 585057013267 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 585057013268 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 585057013269 substrate binding site [chemical binding]; other site 585057013270 dimer interface [polypeptide binding]; other site 585057013271 ATP binding site [chemical binding]; other site 585057013272 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 585057013273 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 585057013274 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 585057013275 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 585057013276 FeS/SAM binding site; other site 585057013277 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 585057013278 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 585057013279 ThiS interaction site; other site 585057013280 putative active site [active] 585057013281 tetramer interface [polypeptide binding]; other site 585057013282 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 585057013283 thiS-thiF/thiG interaction site; other site 585057013284 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 585057013285 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 585057013286 ATP binding site [chemical binding]; other site 585057013287 substrate interface [chemical binding]; other site 585057013288 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 585057013289 thiamine phosphate binding site [chemical binding]; other site 585057013290 active site 585057013291 pyrophosphate binding site [ion binding]; other site 585057013292 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 585057013293 ThiC-associated domain; Region: ThiC-associated; pfam13667 585057013294 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 585057013295 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 585057013296 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 585057013297 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 585057013298 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 585057013299 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 585057013300 putative NADH binding site [chemical binding]; other site 585057013301 putative active site [active] 585057013302 nudix motif; other site 585057013303 putative metal binding site [ion binding]; other site 585057013304 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 585057013305 substrate binding site [chemical binding]; other site 585057013306 active site 585057013307 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 585057013308 Active_site [active] 585057013309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 585057013310 histone-like DNA-binding protein HU; Region: HU; cd13831 585057013311 dimer interface [polypeptide binding]; other site 585057013312 DNA binding site [nucleotide binding] 585057013313 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 585057013314 zinc resistance protein; Provisional; Region: zraP; PRK11546 585057013315 dimer interface [polypeptide binding]; other site 585057013316 sensor protein ZraS; Provisional; Region: PRK10364 585057013317 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 585057013318 dimer interface [polypeptide binding]; other site 585057013319 phosphorylation site [posttranslational modification] 585057013320 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 585057013321 ATP binding site [chemical binding]; other site 585057013322 Mg2+ binding site [ion binding]; other site 585057013323 G-X-G motif; other site 585057013324 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 585057013325 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 585057013326 active site 585057013327 phosphorylation site [posttranslational modification] 585057013328 intermolecular recognition site; other site 585057013329 dimerization interface [polypeptide binding]; other site 585057013330 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 585057013331 Walker A motif; other site 585057013332 ATP binding site [chemical binding]; other site 585057013333 Walker B motif; other site 585057013334 arginine finger; other site 585057013335 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 585057013336 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 585057013337 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 585057013338 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 585057013339 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 585057013340 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 585057013341 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 585057013342 purine monophosphate binding site [chemical binding]; other site 585057013343 dimer interface [polypeptide binding]; other site 585057013344 putative catalytic residues [active] 585057013345 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 585057013346 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 585057013347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057013348 Coenzyme A binding pocket [chemical binding]; other site 585057013349 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 585057013350 proposed active site lysine [active] 585057013351 conserved cys residue [active] 585057013352 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 585057013353 active site 585057013354 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 585057013355 tetramer interface [polypeptide binding]; other site 585057013356 active site 585057013357 Mg2+/Mn2+ binding site [ion binding]; other site 585057013358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057013359 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057013360 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057013361 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057013362 HTH-like domain; Region: HTH_21; pfam13276 585057013363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057013364 Integrase core domain; Region: rve; pfam00665 585057013365 Integrase core domain; Region: rve_2; pfam13333 585057013366 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 585057013367 transcriptional repressor IclR; Provisional; Region: PRK11569 585057013368 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 585057013369 Bacterial transcriptional regulator; Region: IclR; pfam01614 585057013370 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 585057013371 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 585057013372 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 585057013373 substrate binding pocket [chemical binding]; other site 585057013374 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 585057013375 B12 binding site [chemical binding]; other site 585057013376 cobalt ligand [ion binding]; other site 585057013377 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 585057013378 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 585057013379 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 585057013380 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 585057013381 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 585057013382 active site pocket [active] 585057013383 oxyanion hole [active] 585057013384 catalytic triad [active] 585057013385 active site nucleophile [active] 585057013386 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 585057013387 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 585057013388 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 585057013389 shikimate binding site; other site 585057013390 NAD(P) binding site [chemical binding]; other site 585057013391 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 585057013392 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 585057013393 putative NAD(P) binding site [chemical binding]; other site 585057013394 catalytic Zn binding site [ion binding]; other site 585057013395 PTS system, mannose/fructose/sorbose family, IID component; Region: EIID-AGA; TIGR00828 585057013396 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 585057013397 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 585057013398 active site 585057013399 phosphorylation site [posttranslational modification] 585057013400 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 585057013401 active pocket/dimerization site; other site 585057013402 active site 585057013403 phosphorylation site [posttranslational modification] 585057013404 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 585057013405 classical (c) SDRs; Region: SDR_c; cd05233 585057013406 NAD(P) binding site [chemical binding]; other site 585057013407 active site 585057013408 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 585057013409 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 585057013410 putative DNA binding site [nucleotide binding]; other site 585057013411 putative Zn2+ binding site [ion binding]; other site 585057013412 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 585057013413 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 585057013414 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 585057013415 RNA binding surface [nucleotide binding]; other site 585057013416 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 585057013417 probable active site [active] 585057013418 hypothetical protein; Provisional; Region: PRK10515 585057013419 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057013420 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u2; cd13438 585057013421 prohibitin homologues; Region: PHB; smart00244 585057013422 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 585057013423 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 585057013424 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 585057013425 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 585057013426 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057013427 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 585057013428 Phage Tail Collar Domain; Region: Collar; pfam07484 585057013429 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 585057013430 Baseplate J-like protein; Region: Baseplate_J; cl01294 585057013431 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 585057013432 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 585057013433 Phage protein D [General function prediction only]; Region: COG3500 585057013434 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 585057013435 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 585057013436 Cytoskeleton-associated protein 2 C-terminus; Region: CKAP2_C; pfam15297 585057013437 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 585057013438 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 585057013439 Phage tail tube protein FII; Region: Phage_tube; cl01390 585057013440 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 585057013441 Gp37 protein; Region: Gp37; pfam09646 585057013442 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 585057013443 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 585057013444 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057013445 catalytic residue [active] 585057013446 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 585057013447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057013448 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 585057013449 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 585057013450 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057013451 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 585057013452 Mor transcription activator family; Region: Mor; pfam08765 585057013453 aspartate kinase III; Validated; Region: PRK09084 585057013454 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 585057013455 nucleotide binding site [chemical binding]; other site 585057013456 putative catalytic residues [active] 585057013457 aspartate binding site [chemical binding]; other site 585057013458 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 585057013459 lysine allosteric regulatory site; other site 585057013460 dimer interface [polypeptide binding]; other site 585057013461 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 585057013462 dimer interface [polypeptide binding]; other site 585057013463 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 585057013464 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 585057013465 active site 585057013466 dimer interface [polypeptide binding]; other site 585057013467 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 585057013468 dimer interface [polypeptide binding]; other site 585057013469 active site 585057013470 Group 4 capsule polysaccharide formation lipoprotein gfcB; Region: Cap_synth_GfcB; pfam11102 585057013471 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 585057013472 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 585057013473 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 585057013474 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 585057013475 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 585057013476 dimer interface [polypeptide binding]; other site 585057013477 conserved gate region; other site 585057013478 putative PBP binding loops; other site 585057013479 ABC-ATPase subunit interface; other site 585057013480 maltose transporter membrane protein; Provisional; Region: malF; PRK10999 585057013481 Maltose transport system permease protein MalF P2 domain; Region: MalF_P2; pfam14785 585057013482 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 585057013483 dimer interface [polypeptide binding]; other site 585057013484 conserved gate region; other site 585057013485 putative PBP binding loops; other site 585057013486 ABC-ATPase subunit interface; other site 585057013487 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 585057013488 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 585057013489 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 585057013490 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 585057013491 Walker A/P-loop; other site 585057013492 ATP binding site [chemical binding]; other site 585057013493 Q-loop/lid; other site 585057013494 ABC transporter signature motif; other site 585057013495 Walker B; other site 585057013496 D-loop; other site 585057013497 H-loop/switch region; other site 585057013498 TOBE domain; Region: TOBE_2; pfam08402 585057013499 maltoporin; Provisional; Region: lamB; PRK09360 585057013500 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 585057013501 trimer interface; other site 585057013502 sugar binding site [chemical binding]; other site 585057013503 maltose regulon periplasmic protein; Provisional; Region: PRK10564 585057013504 hypothetical protein; Validated; Region: PRK09718 585057013505 SopA-like central domain; Region: SopA; pfam13981 585057013506 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 585057013507 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 585057013508 putative active site [active] 585057013509 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 585057013510 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 585057013511 putative acyl-acceptor binding pocket; other site 585057013512 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 585057013513 putative active site [active] 585057013514 trimer interface [polypeptide binding]; other site 585057013515 putative active site [active] 585057013516 Zn binding site [ion binding]; other site 585057013517 LexA repressor; Validated; Region: PRK00215 585057013518 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 585057013519 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 585057013520 Catalytic site [active] 585057013521 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 585057013522 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 585057013523 hypothetical protein; Provisional; Region: PRK10428 585057013524 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 585057013525 metal binding site 2 [ion binding]; metal-binding site 585057013526 putative DNA binding helix; other site 585057013527 metal binding site 1 [ion binding]; metal-binding site 585057013528 dimer interface [polypeptide binding]; other site 585057013529 structural Zn2+ binding site [ion binding]; other site 585057013530 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 585057013531 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 585057013532 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 585057013533 FMN binding site [chemical binding]; other site 585057013534 active site 585057013535 catalytic residues [active] 585057013536 substrate binding site [chemical binding]; other site 585057013537 phage shock protein G; Reviewed; Region: pspG; PRK09459 585057013538 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 585057013539 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 585057013540 NADP binding site [chemical binding]; other site 585057013541 dimer interface [polypeptide binding]; other site 585057013542 replicative DNA helicase; Provisional; Region: PRK08006 585057013543 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 585057013544 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 585057013545 Walker A motif; other site 585057013546 ATP binding site [chemical binding]; other site 585057013547 Walker B motif; other site 585057013548 DNA binding loops [nucleotide binding] 585057013549 alanine racemase; Reviewed; Region: alr; PRK00053 585057013550 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 585057013551 active site 585057013552 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 585057013553 substrate binding site [chemical binding]; other site 585057013554 catalytic residues [active] 585057013555 dimer interface [polypeptide binding]; other site 585057013556 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 585057013557 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 585057013558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057013559 homodimer interface [polypeptide binding]; other site 585057013560 catalytic residue [active] 585057013561 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 585057013562 active site 585057013563 motif I; other site 585057013564 motif II; other site 585057013565 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 585057013566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 585057013567 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 585057013568 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 585057013569 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 585057013570 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 585057013571 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 585057013572 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 585057013573 dimer interface [polypeptide binding]; other site 585057013574 ssDNA binding site [nucleotide binding]; other site 585057013575 tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057013576 putative single-stranded DNA-binding protein; Region: PHA01740 585057013577 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 585057013578 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057013579 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 585057013580 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 585057013581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057013582 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 585057013583 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 585057013584 DNA binding residues [nucleotide binding] 585057013585 dimer interface [polypeptide binding]; other site 585057013586 [2Fe-2S] cluster binding site [ion binding]; other site 585057013587 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 585057013588 Sulfate transporter family; Region: Sulfate_transp; cl19250 585057013589 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 585057013590 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 585057013591 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 585057013592 Na binding site [ion binding]; other site 585057013593 Predicted membrane protein [Function unknown]; Region: COG3162 585057013594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057013595 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057013596 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057013597 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057013598 HTH-like domain; Region: HTH_21; pfam13276 585057013599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057013600 Integrase core domain; Region: rve; pfam00665 585057013601 Integrase core domain; Region: rve_2; pfam13333 585057013602 acetyl-CoA synthetase; Provisional; Region: PRK00174 585057013603 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 585057013604 active site 585057013605 CoA binding site [chemical binding]; other site 585057013606 acyl-activating enzyme (AAE) consensus motif; other site 585057013607 AMP binding site [chemical binding]; other site 585057013608 acetate binding site [chemical binding]; other site 585057013609 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 585057013610 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 585057013611 Cytochrome c7; Region: Cytochrome_C7; cl19206 585057013612 Cytochrome c3; Region: Cytochrom_c3_2; pfam14537 585057013613 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 585057013614 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057013615 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 585057013616 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 585057013617 heme lyase subunit NrfE; Provisional; Region: PRK10369 585057013618 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 585057013619 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 585057013620 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 585057013621 binding surface 585057013622 TPR motif; other site 585057013623 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 585057013624 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 585057013625 Sel1-like repeats; Region: SEL1; smart00671 585057013626 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 585057013627 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 585057013628 [4Fe-4S] binding site [ion binding]; other site 585057013629 molybdopterin cofactor binding site; other site 585057013630 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 585057013631 molybdopterin cofactor binding site; other site 585057013632 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 585057013633 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 585057013634 Outer membrane efflux protein; Region: OEP; pfam02321 585057013635 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 585057013636 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 585057013637 multidrug resistance protein MdtN; Provisional; Region: PRK10476 585057013638 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 585057013639 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 585057013640 HlyD family secretion protein; Region: HlyD_3; pfam13437 585057013641 fragment of conserved hypothetical protein; putative membrane protein; putative Formate dehydrogenase H (partial);Evidence 7 : Gene remnant 585057013642 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 585057013643 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 585057013644 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 585057013645 Alkyl sulfatase C-terminal; Region: Alkyl_sulf_C; pfam14864 585057013646 D-allose kinase; Provisional; Region: PRK09698 585057013647 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 585057013648 nucleotide binding site [chemical binding]; other site 585057013649 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 585057013650 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 585057013651 substrate binding site [chemical binding]; other site 585057013652 hexamer interface [polypeptide binding]; other site 585057013653 metal binding site [ion binding]; metal-binding site 585057013654 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 585057013655 TM-ABC transporter signature motif; other site 585057013656 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 585057013657 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057013658 Walker A/P-loop; other site 585057013659 ATP binding site [chemical binding]; other site 585057013660 Q-loop/lid; other site 585057013661 ABC transporter signature motif; other site 585057013662 Walker B; other site 585057013663 D-loop; other site 585057013664 H-loop/switch region; other site 585057013665 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057013666 D-allose transporter subunit; Provisional; Region: PRK09701 585057013667 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 585057013668 ligand binding site [chemical binding]; other site 585057013669 dimerization interface [polypeptide binding]; other site 585057013670 zinc binding site [ion binding]; other site 585057013671 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 585057013672 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 585057013673 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 585057013674 putative active site [active] 585057013675 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 585057013676 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 585057013677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057013678 Coenzyme A binding pocket [chemical binding]; other site 585057013679 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 585057013680 Guanylate kinase; Region: Guanylate_kin; pfam00625 585057013681 active site 585057013682 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 585057013683 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 585057013684 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 585057013685 active site 585057013686 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 585057013687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 585057013688 Walker A/P-loop; other site 585057013689 ATP binding site [chemical binding]; other site 585057013690 Q-loop/lid; other site 585057013691 ABC transporter signature motif; other site 585057013692 Walker B; other site 585057013693 D-loop; other site 585057013694 H-loop/switch region; other site 585057013695 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 585057013696 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 585057013697 Walker A/P-loop; other site 585057013698 ATP binding site [chemical binding]; other site 585057013699 Q-loop/lid; other site 585057013700 ABC transporter signature motif; other site 585057013701 Walker B; other site 585057013702 D-loop; other site 585057013703 H-loop/switch region; other site 585057013704 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 585057013705 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 585057013706 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 585057013707 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 585057013708 Phosphonate metabolizm protein PhnG; Region: PhnG; pfam06754 585057013709 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 585057013710 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057013711 DNA-binding site [nucleotide binding]; DNA binding site 585057013712 UTRA domain; Region: UTRA; pfam07702 585057013713 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 585057013714 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 585057013715 dimer interface [polypeptide binding]; other site 585057013716 conserved gate region; other site 585057013717 putative PBP binding loops; other site 585057013718 ABC-ATPase subunit interface; other site 585057013719 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 585057013720 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 585057013721 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 585057013722 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 585057013723 Walker A/P-loop; other site 585057013724 ATP binding site [chemical binding]; other site 585057013725 Q-loop/lid; other site 585057013726 ABC transporter signature motif; other site 585057013727 Walker B; other site 585057013728 D-loop; other site 585057013729 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057013730 hypothetical protein; Provisional; Region: PRK10220 585057013731 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 585057013732 PhnA protein; Region: PhnA; pfam03831 585057013733 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585057013734 G1 box; other site 585057013735 GTP/Mg2+ binding site [chemical binding]; other site 585057013736 G2 box; other site 585057013737 Switch I region; other site 585057013738 G3 box; other site 585057013739 Switch II region; other site 585057013740 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 585057013741 G2 box; other site 585057013742 Switch I region; other site 585057013743 G3 box; other site 585057013744 Switch II region; other site 585057013745 G4 box; other site 585057013746 G5 box; other site 585057013747 YjcZ-like protein; Region: YjcZ; pfam13990 585057013748 proline/glycine betaine transporter; Provisional; Region: PRK10642 585057013749 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057013750 putative substrate translocation pore; other site 585057013751 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 585057013752 sensor protein BasS/PmrB; Provisional; Region: PRK10755 585057013753 HAMP domain; Region: HAMP; pfam00672 585057013754 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 585057013755 dimer interface [polypeptide binding]; other site 585057013756 phosphorylation site [posttranslational modification] 585057013757 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 585057013758 ATP binding site [chemical binding]; other site 585057013759 Mg2+ binding site [ion binding]; other site 585057013760 G-X-G motif; other site 585057013761 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 585057013762 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 585057013763 active site 585057013764 phosphorylation site [posttranslational modification] 585057013765 intermolecular recognition site; other site 585057013766 dimerization interface [polypeptide binding]; other site 585057013767 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 585057013768 DNA binding site [nucleotide binding] 585057013769 putative metal dependent hydrolase; Provisional; Region: PRK11598 585057013770 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 585057013771 Sulfatase; Region: Sulfatase; pfam00884 585057013772 arginine:agmatin antiporter; Provisional; Region: PRK10644 585057013773 Spore germination protein; Region: Spore_permease; cl17796 585057013774 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057013775 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057013776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 585057013777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057013778 arginine decarboxylase; Provisional; Region: PRK15029 585057013779 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 585057013780 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 585057013781 homodimer interface [polypeptide binding]; other site 585057013782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057013783 catalytic residue [active] 585057013784 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 585057013785 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 585057013786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057013787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057013788 alpha-galactosidase; Provisional; Region: PRK15076 585057013789 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 585057013790 NAD binding site [chemical binding]; other site 585057013791 sugar binding site [chemical binding]; other site 585057013792 divalent metal binding site [ion binding]; other site 585057013793 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 585057013794 dimer interface [polypeptide binding]; other site 585057013795 melibiose:sodium symporter; Provisional; Region: PRK10429 585057013796 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 585057013797 hypothetical protein; Provisional; Region: PRK09867 585057013798 fumarate hydratase; Provisional; Region: PRK15389 585057013799 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 585057013800 Fumarase C-terminus; Region: Fumerase_C; pfam05683 585057013801 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 585057013802 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 585057013803 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 585057013804 active site 585057013805 phosphorylation site [posttranslational modification] 585057013806 intermolecular recognition site; other site 585057013807 dimerization interface [polypeptide binding]; other site 585057013808 sensory histidine kinase DcuS; Provisional; Region: PRK11086 585057013809 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 585057013810 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 585057013811 putative active site [active] 585057013812 heme pocket [chemical binding]; other site 585057013813 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 585057013814 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 585057013815 ATP binding site [chemical binding]; other site 585057013816 Mg2+ binding site [ion binding]; other site 585057013817 G-X-G motif; other site 585057013818 Uncharacterized conserved protein [Function unknown]; Region: COG3592 585057013819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057013820 Coenzyme A binding pocket [chemical binding]; other site 585057013821 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 585057013822 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 585057013823 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 585057013824 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 585057013825 dimer interface [polypeptide binding]; other site 585057013826 putative anticodon binding site; other site 585057013827 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 585057013828 motif 1; other site 585057013829 active site 585057013830 motif 2; other site 585057013831 motif 3; other site 585057013832 Major Facilitator Superfamily; Region: MFS_1; pfam07690 585057013833 POT family; Region: PTR2; cl17359 585057013834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057013835 lysine decarboxylase CadA; Provisional; Region: PRK15400 585057013836 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 585057013837 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 585057013838 homodimer interface [polypeptide binding]; other site 585057013839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 585057013840 catalytic residue [active] 585057013841 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 585057013842 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 585057013843 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 585057013844 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 585057013845 DNA binding site [nucleotide binding] 585057013846 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 585057013847 Transposase; Region: HTH_Tnp_1; cl17663 585057013848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057013849 putative transposase OrfB; Reviewed; Region: PHA02517 585057013850 HTH-like domain; Region: HTH_21; pfam13276 585057013851 Integrase core domain; Region: rve; pfam00665 585057013852 Integrase core domain; Region: rve_3; pfam13683 585057013853 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 585057013854 Methyltransferase domain; Region: Methyltransf_27; pfam13708 585057013855 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 585057013856 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 585057013857 fragment of antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage (partial);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057013858 Protein of unknown function (DUF987); Region: DUF987; pfam06174 585057013859 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 585057013860 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 585057013861 MPN+ (JAMM) motif; other site 585057013862 Zinc-binding site [ion binding]; other site 585057013863 Antirestriction protein; Region: Antirestrict; pfam03230 585057013864 Domain of unknown function (DUF932); Region: DUF932; pfam06067 585057013865 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 585057013866 Predicted GTPase [General function prediction only]; Region: COG3596 585057013867 YfjP GTPase; Region: YfjP; cd11383 585057013868 G1 box; other site 585057013869 GTP/Mg2+ binding site [chemical binding]; other site 585057013870 Switch I region; other site 585057013871 G2 box; other site 585057013872 Switch II region; other site 585057013873 G3 box; other site 585057013874 G4 box; other site 585057013875 G5 box; other site 585057013876 Transposase; Region: HTH_Tnp_1; cl17663 585057013877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057013878 putative transposase OrfB; Reviewed; Region: PHA02517 585057013879 HTH-like domain; Region: HTH_21; pfam13276 585057013880 Integrase core domain; Region: rve; pfam00665 585057013881 Integrase core domain; Region: rve_3; pfam13683 585057013882 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 585057013883 FaeA-like protein; Region: FaeA; pfam04703 585057013884 Adhesin biosynthesis transcription regulatory protein; Region: PapB; pfam03333 585057013885 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057013886 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057013887 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 585057013888 PapC N-terminal domain; Region: PapC_N; pfam13954 585057013889 Outer membrane usher protein; Region: Usher; pfam00577 585057013890 PapC C-terminal domain; Region: PapC_C; pfam13953 585057013891 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 585057013892 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057013893 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057013894 Pilus-assembly fibrillin subunit, chaperone; Region: PapJ; pfam14855 585057013895 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057013896 Fimbrial protein; Region: Fimbrial; pfam00419 585057013897 Fimbrial protein; Region: Fimbrial; pfam00419 585057013898 PapG carbohydrate / receptor binding domain (CBD); PapG, the adhesin of the P-pili, is situated at the tip, mediating the attachment of uropathogenic Escherichia coli to the uroepithelium of the human kidney; PapG has a two-domain architecture: a...; Region: PapG_CBD; cd00239 585057013899 putative membrane interaction site; other site 585057013900 receptor/carbohydrate binding site; other site 585057013901 PapG chaperone-binding domain; Region: PapG_C; pfam03628 585057013902 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 585057013903 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 585057013904 Sulfatase; Region: Sulfatase; cl19157 585057013905 replicative DNA helicase; Provisional; Region: PRK05973 585057013906 Part of AAA domain; Region: AAA_19; pfam13245 585057013907 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 585057013908 AAA domain; Region: AAA_12; pfam13087 585057013909 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 585057013910 putative active site [active] 585057013911 catalytic site [active] 585057013912 integrase; Provisional; Region: PRK09692 585057013913 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 585057013914 active site 585057013915 Int/Topo IB signature motif; other site 585057013916 putative transcriptional regulator; Provisional; Region: PRK11640 585057013917 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 585057013918 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 585057013919 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 585057013920 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 585057013921 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 585057013922 DsbD alpha interface [polypeptide binding]; other site 585057013923 catalytic residues [active] 585057013924 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 585057013925 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 585057013926 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 585057013927 Aspartase; Region: Aspartase; cd01357 585057013928 active sites [active] 585057013929 tetramer interface [polypeptide binding]; other site 585057013930 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 585057013931 putative transporter; Provisional; Region: PRK11021 585057013932 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057013933 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 585057013934 oligomerisation interface [polypeptide binding]; other site 585057013935 mobile loop; other site 585057013936 roof hairpin; other site 585057013937 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 585057013938 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 585057013939 ring oligomerisation interface [polypeptide binding]; other site 585057013940 ATP/Mg binding site [chemical binding]; other site 585057013941 stacking interactions; other site 585057013942 hinge regions; other site 585057013943 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 585057013944 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 585057013945 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 585057013946 FeS/SAM binding site; other site 585057013947 elongation factor P; Validated; Region: PRK00529 585057013948 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 585057013949 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 585057013950 RNA binding site [nucleotide binding]; other site 585057013951 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 585057013952 RNA binding site [nucleotide binding]; other site 585057013953 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057013954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057013955 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057013956 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057013957 multidrug efflux system protein; Provisional; Region: PRK11431 585057013958 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 585057013959 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 585057013960 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 585057013961 Iron-sulfur protein interface; other site 585057013962 proximal quinone binding site [chemical binding]; other site 585057013963 C-subunit interface; other site 585057013964 distal quinone binding site; other site 585057013965 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 585057013966 D-subunit interface [polypeptide binding]; other site 585057013967 Iron-sulfur protein interface; other site 585057013968 proximal quinone binding site [chemical binding]; other site 585057013969 distal quinone binding site [chemical binding]; other site 585057013970 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 585057013971 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 585057013972 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 585057013973 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 585057013974 L-aspartate oxidase; Provisional; Region: PRK06175 585057013975 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 585057013976 poxB regulator PoxA; Provisional; Region: PRK09350 585057013977 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 585057013978 motif 1; other site 585057013979 dimer interface [polypeptide binding]; other site 585057013980 active site 585057013981 motif 2; other site 585057013982 motif 3; other site 585057013983 inner membrane transporter YjeM; Provisional; Region: PRK15238 585057013984 putative mechanosensitive channel protein; Provisional; Region: PRK10929 585057013985 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 585057013986 DNA-binding site [nucleotide binding]; DNA binding site 585057013987 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 585057013988 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 585057013989 Mechanosensitive ion channel; Region: MS_channel; pfam00924 585057013990 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 585057013991 GTPase RsgA; Reviewed; Region: PRK12288 585057013992 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 585057013993 RNA binding site [nucleotide binding]; other site 585057013994 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 585057013995 GTPase/Zn-binding domain interface [polypeptide binding]; other site 585057013996 GTP/Mg2+ binding site [chemical binding]; other site 585057013997 G4 box; other site 585057013998 G5 box; other site 585057013999 G1 box; other site 585057014000 Switch I region; other site 585057014001 G2 box; other site 585057014002 G3 box; other site 585057014003 Switch II region; other site 585057014004 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 585057014005 catalytic site [active] 585057014006 putative active site [active] 585057014007 putative substrate binding site [chemical binding]; other site 585057014008 dimer interface [polypeptide binding]; other site 585057014009 epoxyqueuosine reductase; Region: TIGR00276 585057014010 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 585057014011 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 585057014012 putative carbohydrate kinase; Provisional; Region: PRK10565 585057014013 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 585057014014 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 585057014015 putative substrate binding site [chemical binding]; other site 585057014016 putative ATP binding site [chemical binding]; other site 585057014017 ADP-binding protein; Provisional; Region: PRK10646 585057014018 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 585057014019 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 585057014020 AMIN domain; Region: AMIN; pfam11741 585057014021 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 585057014022 active site 585057014023 metal binding site [ion binding]; metal-binding site 585057014024 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 585057014025 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 585057014026 ATP binding site [chemical binding]; other site 585057014027 Mg2+ binding site [ion binding]; other site 585057014028 G-X-G motif; other site 585057014029 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 585057014030 ATP binding site [chemical binding]; other site 585057014031 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 585057014032 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 585057014033 bacterial Hfq-like; Region: Hfq; cd01716 585057014034 hexamer interface [polypeptide binding]; other site 585057014035 Sm1 motif; other site 585057014036 RNA binding site [nucleotide binding]; other site 585057014037 Sm2 motif; other site 585057014038 GTPase HflX; Provisional; Region: PRK11058 585057014039 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 585057014040 HflX GTPase family; Region: HflX; cd01878 585057014041 G1 box; other site 585057014042 GTP/Mg2+ binding site [chemical binding]; other site 585057014043 Switch I region; other site 585057014044 G2 box; other site 585057014045 G3 box; other site 585057014046 Switch II region; other site 585057014047 G4 box; other site 585057014048 G5 box; other site 585057014049 FtsH protease regulator HflK; Provisional; Region: PRK10930 585057014050 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 585057014051 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 585057014052 HflC protein; Region: hflC; TIGR01932 585057014053 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 585057014054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 585057014055 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 585057014056 GDP-binding site [chemical binding]; other site 585057014057 ACT binding site; other site 585057014058 IMP binding site; other site 585057014059 transcriptional repressor NsrR; Provisional; Region: PRK11014 585057014060 Rrf2 family protein; Region: rrf2_super; TIGR00738 585057014061 exoribonuclease R; Provisional; Region: PRK11642 585057014062 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 585057014063 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 585057014064 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 585057014065 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 585057014066 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 585057014067 RNA binding site [nucleotide binding]; other site 585057014068 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 585057014069 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 585057014070 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 585057014071 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 585057014072 PspA/IM30 family; Region: PspA_IM30; pfam04012 585057014073 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 585057014074 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 585057014075 Predicted membrane protein [Function unknown]; Region: COG3766 585057014076 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 585057014077 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 585057014078 Predicted integral membrane protein [Function unknown]; Region: COG5463 585057014079 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 585057014080 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 585057014081 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 585057014082 FAD binding site [chemical binding]; other site 585057014083 substrate binding site [chemical binding]; other site 585057014084 catalytic residues [active] 585057014085 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057014086 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 585057014087 esterase; Provisional; Region: PRK10566 585057014088 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 585057014089 transcriptional repressor UlaR; Provisional; Region: PRK13509 585057014090 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 585057014091 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 585057014092 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 585057014093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 585057014094 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 585057014095 active site 585057014096 P-loop; other site 585057014097 phosphorylation site [posttranslational modification] 585057014098 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 585057014099 active site 585057014100 phosphorylation site [posttranslational modification] 585057014101 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 585057014102 active site 585057014103 dimer interface [polypeptide binding]; other site 585057014104 magnesium binding site [ion binding]; other site 585057014105 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 585057014106 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 585057014107 AP (apurinic/apyrimidinic) site pocket; other site 585057014108 DNA interaction; other site 585057014109 Metal-binding active site; metal-binding site 585057014110 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 585057014111 intersubunit interface [polypeptide binding]; other site 585057014112 active site 585057014113 Zn2+ binding site [ion binding]; other site 585057014114 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 585057014115 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 585057014116 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 585057014117 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 585057014118 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 585057014119 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 585057014120 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 585057014121 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057014122 D-galactonate transporter; Region: 2A0114; TIGR00893 585057014123 putative substrate translocation pore; other site 585057014124 L-aspartate oxidase; Provisional; Region: PRK06175 585057014125 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 585057014126 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 585057014127 Coenzyme A transferase; Region: CoA_trans; smart00882 585057014128 Coenzyme A transferase; Region: CoA_trans; cl17247 585057014129 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 585057014130 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 585057014131 substrate binding site [chemical binding]; other site 585057014132 oxyanion hole (OAH) forming residues; other site 585057014133 trimer interface [polypeptide binding]; other site 585057014134 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 585057014135 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 585057014136 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 585057014137 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 585057014138 putative NAD(P) binding site [chemical binding]; other site 585057014139 active site 585057014140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 585057014141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 585057014142 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 585057014143 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 585057014144 Rubella capsid protein; Region: Rubella_Capsid; pfam05750 585057014145 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 585057014146 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 585057014147 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 585057014148 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 585057014149 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 585057014150 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 585057014151 DKNYY family; Region: DKNYY; pfam13644 585057014152 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 585057014153 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 585057014154 Hemerythrin-like domain; Region: Hr-like; cd12108 585057014155 Fe binding site [ion binding]; other site 585057014156 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 585057014157 EamA-like transporter family; Region: EamA; pfam00892 585057014158 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 585057014159 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 585057014160 NADP binding site [chemical binding]; other site 585057014161 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 585057014162 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 585057014163 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 585057014164 active site 585057014165 metal binding site [ion binding]; metal-binding site 585057014166 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 585057014167 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 585057014168 active site 585057014169 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 585057014170 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 585057014171 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 585057014172 Domain of unknown function DUF21; Region: DUF21; pfam01595 585057014173 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 585057014174 Transporter associated domain; Region: CorC_HlyC; smart01091 585057014175 methionine sulfoxide reductase A; Provisional; Region: PRK00058 585057014176 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 585057014177 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057014178 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 585057014179 Surface antigen; Region: Bac_surface_Ag; pfam01103 585057014180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 585057014181 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 585057014182 Family of unknown function (DUF490); Region: DUF490; pfam04357 585057014183 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 585057014184 putative active site pocket [active] 585057014185 dimerization interface [polypeptide binding]; other site 585057014186 putative catalytic residue [active] 585057014187 antitoxin ChpS; Provisional; Region: PRK11347 585057014188 toxin ChpB; Provisional; Region: PRK09812 585057014189 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 585057014190 dimer interface [polypeptide binding]; other site 585057014191 substrate binding site [chemical binding]; other site 585057014192 metal binding sites [ion binding]; metal-binding site 585057014193 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 585057014194 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 585057014195 putative ligand binding site [chemical binding]; other site 585057014196 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 585057014197 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 585057014198 Walker A/P-loop; other site 585057014199 ATP binding site [chemical binding]; other site 585057014200 Q-loop/lid; other site 585057014201 ABC transporter signature motif; other site 585057014202 Walker B; other site 585057014203 D-loop; other site 585057014204 H-loop/switch region; other site 585057014205 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 585057014206 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 585057014207 TM-ABC transporter signature motif; other site 585057014208 fragment of putative sugar transporter subunit: membrane component of ABC superfamily (part 1);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057014209 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 585057014210 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 585057014211 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 585057014212 fragment of putative sugar transporter subunit: membrane component of ABC superfamily (part 2);Evidence 7 : Gene remnant; Product type pt : putative transporter 585057014213 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 585057014214 AMP binding site [chemical binding]; other site 585057014215 metal binding site [ion binding]; metal-binding site 585057014216 active site 585057014217 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 585057014218 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 585057014219 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 585057014220 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 585057014221 HTH-like domain; Region: HTH_21; pfam13276 585057014222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057014223 Integrase core domain; Region: rve; pfam00665 585057014224 Integrase core domain; Region: rve_2; pfam13333 585057014225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014226 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057014227 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057014228 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057014229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 585057014230 peptidase PmbA; Provisional; Region: PRK11040 585057014231 cytochrome b562; Provisional; Region: PRK15058 585057014232 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 585057014233 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 585057014234 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 585057014235 FeS/SAM binding site; other site 585057014236 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 585057014237 ATP cone domain; Region: ATP-cone; pfam03477 585057014238 Class III ribonucleotide reductase; Region: RNR_III; cd01675 585057014239 effector binding site; other site 585057014240 active site 585057014241 Zn binding site [ion binding]; other site 585057014242 glycine loop; other site 585057014243 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 585057014244 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 585057014245 Ca binding site [ion binding]; other site 585057014246 active site 585057014247 catalytic site [active] 585057014248 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 585057014249 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 585057014250 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 585057014251 active site turn [active] 585057014252 phosphorylation site [posttranslational modification] 585057014253 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 585057014254 trehalose repressor; Provisional; Region: treR; PRK09492 585057014255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057014256 DNA binding site [nucleotide binding] 585057014257 domain linker motif; other site 585057014258 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 585057014259 dimerization interface [polypeptide binding]; other site 585057014260 ligand binding site [chemical binding]; other site 585057014261 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 585057014262 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 585057014263 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 585057014264 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 585057014265 Soluble P-type ATPase [General function prediction only]; Region: COG4087 585057014266 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 585057014267 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 585057014268 homotrimer interaction site [polypeptide binding]; other site 585057014269 putative active site [active] 585057014270 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 585057014271 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 585057014272 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 585057014273 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 585057014274 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 585057014275 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 585057014276 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 585057014277 Arginine repressor [Transcription]; Region: ArgR; COG1438 585057014278 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 585057014279 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 585057014280 Predicted membrane protein [Function unknown]; Region: COG1288 585057014281 ornithine carbamoyltransferase; Validated; Region: PRK02102 585057014282 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 585057014283 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 585057014284 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 585057014285 putative substrate binding site [chemical binding]; other site 585057014286 nucleotide binding site [chemical binding]; other site 585057014287 nucleotide binding site [chemical binding]; other site 585057014288 homodimer interface [polypeptide binding]; other site 585057014289 arginine deiminase; Provisional; Region: PRK01388 585057014290 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 585057014291 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 585057014292 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 585057014293 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 585057014294 RNase E inhibitor protein; Provisional; Region: PRK11191 585057014295 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 585057014296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057014297 Coenzyme A binding pocket [chemical binding]; other site 585057014298 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 585057014299 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 585057014300 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 585057014301 active site 585057014302 HIGH motif; other site 585057014303 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 585057014304 KMSKS motif; other site 585057014305 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 585057014306 tRNA binding surface [nucleotide binding]; other site 585057014307 anticodon binding site; other site 585057014308 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 585057014309 DNA polymerase III subunit chi; Validated; Region: PRK05728 585057014310 multifunctional aminopeptidase A; Provisional; Region: PRK00913 585057014311 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 585057014312 interface (dimer of trimers) [polypeptide binding]; other site 585057014313 Substrate-binding/catalytic site; other site 585057014314 Zn-binding sites [ion binding]; other site 585057014315 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 585057014316 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 585057014317 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 585057014318 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 585057014319 Walker A motif; other site 585057014320 ATP binding site [chemical binding]; other site 585057014321 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 585057014322 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 585057014323 DNA binding site [nucleotide binding] 585057014324 domain linker motif; other site 585057014325 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 585057014326 putative dimerization interface [polypeptide binding]; other site 585057014327 putative ligand binding site [chemical binding]; other site 585057014328 gluconate transporter; Region: gntP; TIGR00791 585057014329 GntP family permease; Region: GntP_permease; pfam02447 585057014330 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 585057014331 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 585057014332 NADP binding site [chemical binding]; other site 585057014333 homodimer interface [polypeptide binding]; other site 585057014334 active site 585057014335 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 585057014336 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 585057014337 putative NAD(P) binding site [chemical binding]; other site 585057014338 catalytic Zn binding site [ion binding]; other site 585057014339 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 585057014340 AAA domain; Region: AAA_33; pfam13671 585057014341 ATP-binding site [chemical binding]; other site 585057014342 Gluconate-6-phosphate binding site [chemical binding]; other site 585057014343 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 585057014344 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 585057014345 putative NAD(P) binding site [chemical binding]; other site 585057014346 putative substrate binding site [chemical binding]; other site 585057014347 catalytic Zn binding site [ion binding]; other site 585057014348 structural Zn binding site [ion binding]; other site 585057014349 dimer interface [polypeptide binding]; other site 585057014350 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 585057014351 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 585057014352 active site 585057014353 Int/Topo IB signature motif; other site 585057014354 fragment of conserved hypothetical protein (partial);Evidence 7 : Gene remnant 585057014355 putative sialic acid transporter; Provisional; Region: PRK12307 585057014356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 585057014357 putative substrate translocation pore; other site 585057014358 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 585057014359 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 585057014360 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 585057014361 D-galactonate transporter; Region: 2A0114; TIGR00893 585057014362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014363 Transposase; Region: HTH_Tnp_1; cl17663 585057014364 Transposase; Region: DEDD_Tnp_IS110; pfam01548 585057014365 putative transposase OrfB; Reviewed; Region: PHA02517 585057014366 HTH-like domain; Region: HTH_21; pfam13276 585057014367 Integrase core domain; Region: rve; pfam00665 585057014368 Integrase core domain; Region: rve_3; pfam13683 585057014369 Transposase; Region: HTH_Tnp_1; cl17663 585057014370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014371 BCCT family transporter; Region: BCCT; pfam02028 585057014372 putative transposase OrfB; Reviewed; Region: PHA02517 585057014373 HTH-like domain; Region: HTH_21; pfam13276 585057014374 Integrase core domain; Region: rve; pfam00665 585057014375 Integrase core domain; Region: rve_3; pfam13683 585057014376 fragment of transposase ORF A, IS600 (partial);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057014377 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 585057014378 putative acyl-acceptor binding pocket; other site 585057014379 Protein of unknown function (DUF535); Region: DUF535; pfam04393 585057014380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 585057014381 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 585057014382 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 585057014383 putative active site [active] 585057014384 putative metal binding site [ion binding]; other site 585057014385 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014386 Transposase; Region: HTH_Tnp_1; cl17663 585057014387 HTH-like domain; Region: HTH_21; pfam13276 585057014388 Integrase core domain; Region: rve; pfam00665 585057014389 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 585057014390 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 585057014391 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 585057014392 Walker A/P-loop; other site 585057014393 ATP binding site [chemical binding]; other site 585057014394 Q-loop/lid; other site 585057014395 ABC transporter signature motif; other site 585057014396 Walker B; other site 585057014397 D-loop; other site 585057014398 H-loop/switch region; other site 585057014399 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 585057014400 ABC-ATPase subunit interface; other site 585057014401 dimer interface [polypeptide binding]; other site 585057014402 putative PBP binding regions; other site 585057014403 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 585057014404 ABC-ATPase subunit interface; other site 585057014405 dimer interface [polypeptide binding]; other site 585057014406 putative PBP binding regions; other site 585057014407 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 585057014408 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 585057014409 siderophore binding site; other site 585057014410 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 585057014411 Secretin and TonB N terminus short domain; Region: STN; smart00965 585057014412 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 585057014413 N-terminal plug; other site 585057014414 ligand-binding site [chemical binding]; other site 585057014415 fec operon regulator FecR; Reviewed; Region: PRK09774 585057014416 FecR protein; Region: FecR; pfam04773 585057014417 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 585057014418 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 585057014419 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 585057014420 DNA binding residues [nucleotide binding] 585057014421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 585057014422 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 585057014423 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 585057014424 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 585057014425 putative transposase OrfB; Reviewed; Region: PHA02517 585057014426 HTH-like domain; Region: HTH_21; pfam13276 585057014427 Integrase core domain; Region: rve; pfam00665 585057014428 Integrase core domain; Region: rve_3; pfam13683 585057014429 Transposase; Region: HTH_Tnp_1; cl17663 585057014430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014431 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 585057014432 fragment of putative GTPase subunit of restriction endonuclease (part 2);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 585057014433 fragment of putative GTPase subunit of restriction endonuclease (part 1);Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 585057014434 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 585057014435 HNH endonuclease; Region: HNH_2; pfam13391 585057014436 Domain of unknown function (DUF303); Region: DUF303; pfam03629 585057014437 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 585057014438 Kelch motif; Region: Kelch_1; pfam01344 585057014439 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 585057014440 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 585057014441 Int/Topo IB signature motif; other site 585057014442 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 585057014443 Int/Topo IB signature motif; other site 585057014444 Fimbrial protein; Region: Fimbrial; cl01416 585057014445 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057014446 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 585057014447 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 585057014448 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 585057014449 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 585057014450 PapC N-terminal domain; Region: PapC_N; pfam13954 585057014451 Outer membrane usher protein; Region: Usher; pfam00577 585057014452 PapC C-terminal domain; Region: PapC_C; pfam13953 585057014453 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057014454 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 585057014455 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 585057014456 mannosyl binding site [chemical binding]; other site 585057014457 Fimbrial protein; Region: Fimbrial; pfam00419 585057014458 fructuronate transporter; Provisional; Region: PRK10034 585057014459 GntP family permease; Region: GntP_permease; pfam02447 585057014460 mannonate dehydratase; Region: uxuA; TIGR00695 585057014461 mannonate dehydratase; Provisional; Region: PRK03906 585057014462 D-mannonate oxidoreductase; Provisional; Region: PRK15037 585057014463 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 585057014464 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 585057014465 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 585057014466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 585057014467 DNA-binding site [nucleotide binding]; DNA binding site 585057014468 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057014469 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 585057014470 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 585057014471 cell density-dependent motility repressor; Provisional; Region: PRK10082 585057014472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 585057014473 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 585057014474 dimerization interface [polypeptide binding]; other site 585057014475 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 585057014476 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 585057014477 dimer interface [polypeptide binding]; other site 585057014478 active site 585057014479 hypothetical protein; Provisional; Region: PRK10519 585057014480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 585057014481 Nucleoside recognition; Region: Gate; pfam07670 585057014482 fragment of 2'-phosphotransferase (part 1);Evidence 7 : Gene remnant; Product type e : enzyme 585057014483 fragment of 2'-phosphotransferase (part 2);Evidence 7 : Gene remnant; Product type e : enzyme 585057014484 fragment of conserved hypothetical protein; putative inner membrane protein (part 2);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057014485 fragment of conserved hypothetical protein; putative inner membrane protein (part 1);Evidence 7 : Gene remnant; Product type pm : putative membrane component 585057014486 SdiA-regulated; Region: SdiA-regulated; cd09971 585057014487 putative active site [active] 585057014488 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 585057014489 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 585057014490 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 585057014491 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 585057014492 Predicted membrane protein [Function unknown]; Region: COG2733 585057014493 Protein of unknown function (DUF445); Region: DUF445; pfam04286 585057014494 Uncharacterized conserved protein [Function unknown]; Region: COG5464 585057014495 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 585057014496 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585057014497 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585057014498 Uncharacterized conserved protein [Function unknown]; Region: COG3586 585057014499 endoribonuclease SymE; Provisional; Region: PRK13605 585057014500 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585057014501 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 585057014502 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 585057014503 HsdM N-terminal domain; Region: HsdM_N; pfam12161 585057014504 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 585057014505 Methyltransferase domain; Region: Methyltransf_26; pfam13659 585057014506 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 585057014507 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 585057014508 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 585057014509 ATP binding site [chemical binding]; other site 585057014510 putative Mg++ binding site [ion binding]; other site 585057014511 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 585057014512 Protein of unknown function DUF262; Region: DUF262; pfam03235 585057014513 Uncharacterized conserved protein [Function unknown]; Region: COG1479 585057014514 Protein of unknown function DUF262; Region: DUF262; pfam03235 585057014515 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 585057014516 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 585057014517 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 585057014518 P-loop, Walker A motif; other site 585057014519 Base recognition motif; other site 585057014520 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 585057014521 Uncharacterized small protein [Function unknown]; Region: COG2879 585057014522 carbon starvation protein A; Provisional; Region: PRK15015 585057014523 Carbon starvation protein CstA; Region: CstA; pfam02554 585057014524 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 585057014525 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 585057014526 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 585057014527 dimer interface [polypeptide binding]; other site 585057014528 ligand binding site [chemical binding]; other site 585057014529 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 585057014530 dimerization interface [polypeptide binding]; other site 585057014531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 585057014532 dimer interface [polypeptide binding]; other site 585057014533 putative CheW interface [polypeptide binding]; other site 585057014534 DctM-like transporters; Region: DctM; pfam06808 585057014535 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 585057014536 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 585057014537 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 585057014538 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 585057014539 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 585057014540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 585057014541 DNA-binding site [nucleotide binding]; DNA binding site 585057014542 Transcriptional regulators [Transcription]; Region: GntR; COG1802 585057014543 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 585057014544 fragment of putative oxidoreductase, Zn-dependent and NAD(P)-binding (partial);Evidence 7 : Gene remnant; Product type pe : putative enzyme 585057014545 phosphoglycerol transferase I; Provisional; Region: PRK03776 585057014546 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 585057014547 hypothetical protein; Provisional; Region: PRK11667 585057014548 DNA replication protein DnaC; Validated; Region: PRK07952 585057014549 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 585057014550 Walker A motif; other site 585057014551 ATP binding site [chemical binding]; other site 585057014552 Walker B motif; other site 585057014553 primosomal protein DnaI; Provisional; Region: PRK02854 585057014554 hypothetical protein; Provisional; Region: PRK09917 585057014555 Uncharacterized conserved protein [Function unknown]; Region: COG2966 585057014556 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 585057014557 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 585057014558 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 585057014559 DNA binding residues [nucleotide binding] 585057014560 dimerization interface [polypeptide binding]; other site 585057014561 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 585057014562 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 585057014563 DNA binding residues [nucleotide binding] 585057014564 dimerization interface [polypeptide binding]; other site 585057014565 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 585057014566 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 585057014567 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 585057014568 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 585057014569 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 585057014570 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 585057014571 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 585057014572 S-adenosylmethionine binding site [chemical binding]; other site 585057014573 DNA polymerase III subunit psi; Validated; Region: PRK06856 585057014574 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 585057014575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 585057014576 Coenzyme A binding pocket [chemical binding]; other site 585057014577 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 585057014578 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 585057014579 motif II; other site 585057014580 integrase; Provisional; Region: PRK09692 585057014581 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 585057014582 active site 585057014583 Int/Topo IB signature motif; other site 585057014584 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 585057014585 Active Sites [active] 585057014586 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 585057014587 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 585057014588 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 585057014589 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 585057014590 Catalytic site [active] 585057014591 DNA-binding transcriptional regulator Cro; Region: P22_Cro; cl18770 585057014592 fragment of putative nucleic acid-binding protein; e14 prophage (part 1);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057014593 Transposase; Region: HTH_Tnp_1; cl17663 585057014594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014595 putative transposase OrfB; Reviewed; Region: PHA02517 585057014596 HTH-like domain; Region: HTH_21; pfam13276 585057014597 Integrase core domain; Region: rve; pfam00665 585057014598 Integrase core domain; Region: rve_3; pfam13683 585057014599 fragment of putative nucleic acid-binding protein; e14 prophage (part 2);Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 585057014600 Ash protein family; Region: Phage_ASH; pfam10554 585057014601 Helix-turn-helix domain; Region: HTH_36; pfam13730 585057014602 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 585057014603 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 585057014604 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 585057014605 KilA-N domain; Region: KilA-N; pfam04383 585057014606 Protein of unknown function (DUF968); Region: DUF968; pfam06147 585057014607 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 585057014608 active site 585057014609 Antitermination protein; Region: Antiterm; pfam03589 585057014610 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 585057014611 Antitermination protein; Region: Antiterm; pfam03589 585057014612 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 585057014613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 585057014614 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 585057014615 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 585057014616 Transposase; Region: DDE_Tnp_ISL3; pfam01610 585057014617 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 585057014618 DNA methylase; Region: N6_N4_Mtase; pfam01555 585057014619 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 585057014620 Lysis protein S; Region: Lysis_S; pfam04971 585057014621 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 585057014622 catalytic residues [active] 585057014623 Bacteriophage Rz lysis protein; Region: Phage_lysis; pfam03245 585057014624 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 585057014625 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 585057014626 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 585057014627 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 585057014628 oligomer interface [polypeptide binding]; other site 585057014629 active site residues [active] 585057014630 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 585057014631 Uncharacterized conserved protein [Function unknown]; Region: COG5471 585057014632 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 585057014633 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 585057014634 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 585057014635 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 585057014636 Phage tail protein; Region: Phage_tail_3; pfam08813 585057014637 Bacterial Ig-like domain 2; Region: BID_2; smart00635 585057014638 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; cl06106 585057014639 Minor tail protein T; Region: Phage_tail_T; pfam06223 585057014640 Phage-related minor tail protein [Function unknown]; Region: COG5281 585057014641 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 585057014642 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 585057014643 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 585057014644 Phage-related protein [Function unknown]; Region: COG4718 585057014645 Phage-related protein [Function unknown]; Region: gp18; COG4672 585057014646 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 585057014647 MPN+ (JAMM) motif; other site 585057014648 Zinc-binding site [ion binding]; other site 585057014649 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 585057014650 NlpC/P60 family; Region: NLPC_P60; cl17555 585057014651 Phage-related protein, tail component [Function unknown]; Region: COG4723 585057014652 Phage-related protein, tail component [Function unknown]; Region: COG4733 585057014653 Putative phage tail protein; Region: Phage-tail_3; pfam13550 585057014654 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 585057014655 Interdomain contacts; other site 585057014656 Cytokine receptor motif; other site 585057014657 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 585057014658 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 585057014659 Fibronectin type III protein; Region: DUF3672; pfam12421 585057014660 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 585057014661 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 585057014662 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 585057014663 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 585057014664 active site 585057014665 NTP binding site [chemical binding]; other site 585057014666 nucleic acid binding site [nucleotide binding]; other site 585057014667 DinI-like family; Region: DinI; cl11630 585057014668 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 585057014669 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 585057014670 G1 box; other site 585057014671 putative GEF interaction site [polypeptide binding]; other site 585057014672 GTP/Mg2+ binding site [chemical binding]; other site 585057014673 Switch I region; other site 585057014674 G2 box; other site 585057014675 G3 box; other site 585057014676 Switch II region; other site 585057014677 G4 box; other site 585057014678 G5 box; other site 585057014679 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 585057014680 Elongation Factor G, domain II; Region: EFG_II; pfam14492 585057014681 periplasmic protein; Provisional; Region: PRK10568 585057014682 BON domain; Region: BON; pfam04972 585057014683 BON domain; Region: BON; pfam04972 585057014684 Small integral membrane protein [Function unknown]; Region: COG5487 585057014685 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 585057014686 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 585057014687 active site 585057014688 nucleophile elbow; other site 585057014689 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 585057014690 active site 585057014691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 585057014692 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057014693 Helix-turn-helix domain; Region: HTH_28; pfam13518 585057014694 Protein of unknown function (DUF505); Region: DUF505; cl19549 585057014695 HTH-like domain; Region: HTH_21; pfam13276 585057014696 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 585057014697 Integrase core domain; Region: rve; pfam00665 585057014698 Integrase core domain; Region: rve_2; pfam13333 585057014699 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 585057014700 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 585057014701 FeS/SAM binding site; other site 585057014702 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 585057014703 fragment of conserved hypothetical protein (part 2);Evidence 7 : Gene remnant 585057014704 fragment of conserved hypothetical protein (part 1);Evidence 7 : Gene remnant 585057014705 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 585057014706 intersubunit interface [polypeptide binding]; other site 585057014707 active site 585057014708 catalytic residue [active] 585057014709 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 585057014710 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 585057014711 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 585057014712 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 585057014713 phosphopentomutase; Provisional; Region: PRK05362 585057014714 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 585057014715 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 585057014716 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 585057014717 non-specific DNA binding site [nucleotide binding]; other site 585057014718 salt bridge; other site 585057014719 sequence-specific DNA binding site [nucleotide binding]; other site 585057014720 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 585057014721 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 585057014722 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 585057014723 hypothetical protein; Provisional; Region: PRK11246 585057014724 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 585057014725 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 585057014726 motif II; other site 585057014727 DNA repair protein RadA; Region: sms; TIGR00416 585057014728 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 585057014729 Walker A motif/ATP binding site; other site 585057014730 ATP binding site [chemical binding]; other site 585057014731 Walker B motif; other site 585057014732 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 585057014733 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 585057014734 non-specific DNA binding site [nucleotide binding]; other site 585057014735 salt bridge; other site 585057014736 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 585057014737 sequence-specific DNA binding site [nucleotide binding]; other site 585057014738 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 585057014739 active site 585057014740 (T/H)XGH motif; other site 585057014741 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 585057014742 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 585057014743 non-specific DNA binding site [nucleotide binding]; other site 585057014744 salt bridge; other site 585057014745 sequence-specific DNA binding site [nucleotide binding]; other site 585057014746 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 585057014747 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057014748 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 585057014749 ABC transporter; Region: ABC_tran_2; pfam12848 585057014750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 585057014751 lytic murein transglycosylase; Provisional; Region: PRK11619 585057014752 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 585057014753 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 585057014754 N-acetyl-D-glucosamine binding site [chemical binding]; other site 585057014755 catalytic residue [active] 585057014756 Trp operon repressor; Provisional; Region: PRK01381 585057014757 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 585057014758 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 585057014759 catalytic core [active] 585057014760 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 585057014761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057014762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 585057014763 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 585057014764 hypothetical protein; Provisional; Region: PRK10756 585057014765 DNA-binding response regulator CreB; Provisional; Region: PRK11083 585057014766 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 585057014767 active site 585057014768 phosphorylation site [posttranslational modification] 585057014769 intermolecular recognition site; other site 585057014770 dimerization interface [polypeptide binding]; other site 585057014771 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 585057014772 DNA binding site [nucleotide binding] 585057014773 sensory histidine kinase CreC; Provisional; Region: PRK11100 585057014774 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 585057014775 dimerization interface [polypeptide binding]; other site 585057014776 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 585057014777 dimer interface [polypeptide binding]; other site 585057014778 phosphorylation site [posttranslational modification] 585057014779 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 585057014780 ATP binding site [chemical binding]; other site 585057014781 Mg2+ binding site [ion binding]; other site 585057014782 G-X-G motif; other site 585057014783 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 585057014784 two-component response regulator; Provisional; Region: PRK11173 585057014785 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 585057014786 active site 585057014787 phosphorylation site [posttranslational modification] 585057014788 intermolecular recognition site; other site 585057014789 dimerization interface [polypeptide binding]; other site 585057014790 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 585057014791 DNA binding site [nucleotide binding] 585057014792 putative RNA methyltransferase; Provisional; Region: PRK10433 585057014793 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050