-- dump date 20140620_065556 -- class Genbank::misc_feature -- table misc_feature_note -- id note 300269000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 300269000002 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 300269000003 putative catalytic residues [active] 300269000004 putative nucleotide binding site [chemical binding]; other site 300269000005 putative aspartate binding site [chemical binding]; other site 300269000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 300269000007 dimer interface [polypeptide binding]; other site 300269000008 putative threonine allosteric regulatory site; other site 300269000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 300269000010 putative threonine allosteric regulatory site; other site 300269000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 300269000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 300269000013 homoserine kinase; Region: thrB; TIGR00191 300269000014 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 300269000015 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 300269000016 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 300269000017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269000018 catalytic residue [active] 300269000019 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 300269000020 hypothetical protein; Validated; Region: PRK02101 300269000021 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000022 transaldolase-like protein; Provisional; Region: PTZ00411 300269000023 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 300269000024 active site 300269000025 dimer interface [polypeptide binding]; other site 300269000026 catalytic residue [active] 300269000027 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 300269000028 MPT binding site; other site 300269000029 trimer interface [polypeptide binding]; other site 300269000030 hypothetical protein; Provisional; Region: PRK10659 300269000031 hypothetical protein; Provisional; Region: PRK10236 300269000032 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 300269000033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 300269000034 hypothetical protein; Provisional; Region: PRK10154 300269000035 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 300269000036 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 300269000037 nucleotide binding site [chemical binding]; other site 300269000038 NEF interaction site [polypeptide binding]; other site 300269000039 SBD interface [polypeptide binding]; other site 300269000040 chaperone protein DnaJ; Provisional; Region: PRK10767 300269000041 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 300269000042 HSP70 interaction site [polypeptide binding]; other site 300269000043 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 300269000044 substrate binding site [polypeptide binding]; other site 300269000045 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 300269000046 Zn binding sites [ion binding]; other site 300269000047 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 300269000048 dimer interface [polypeptide binding]; other site 300269000049 Hok/gef family; Region: HOK_GEF; pfam01848 300269000050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269000051 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269000052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269000053 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269000054 Integrase core domain; Region: rve; pfam00665 300269000055 Integrase core domain; Region: rve_3; cl15866 300269000056 transposase/IS protein; Provisional; Region: PRK09183 300269000057 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 300269000058 Walker A motif; other site 300269000059 ATP binding site [chemical binding]; other site 300269000060 Walker B motif; other site 300269000061 arginine finger; other site 300269000062 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269000063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269000064 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 300269000065 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 300269000066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269000067 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 300269000068 putative dimerization interface [polypeptide binding]; other site 300269000069 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269000070 PapC C-terminal domain; Region: PapC_C; pfam13953 300269000071 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000072 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269000073 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 300269000074 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 300269000075 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 300269000076 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 300269000077 active site 300269000078 Riboflavin kinase; Region: Flavokinase; smart00904 300269000079 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 300269000080 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 300269000081 HIGH motif; other site 300269000082 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 300269000083 active site 300269000084 KMSKS motif; other site 300269000085 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 300269000086 tRNA binding surface [nucleotide binding]; other site 300269000087 anticodon binding site; other site 300269000088 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 300269000089 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 300269000090 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 300269000091 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 300269000092 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 300269000093 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 300269000094 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 300269000095 active site 300269000096 tetramer interface [polypeptide binding]; other site 300269000097 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 300269000098 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 300269000099 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 300269000100 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 300269000101 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 300269000102 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 300269000103 catalytic site [active] 300269000104 subunit interface [polypeptide binding]; other site 300269000105 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 300269000106 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 300269000107 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 300269000108 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 300269000109 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 300269000110 ATP-grasp domain; Region: ATP-grasp_4; cl17255 300269000111 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 300269000112 IMP binding site; other site 300269000113 dimer interface [polypeptide binding]; other site 300269000114 interdomain contacts; other site 300269000115 partial ornithine binding site; other site 300269000116 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000117 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 300269000118 carnitine operon protein CaiE; Provisional; Region: PRK13627 300269000119 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 300269000120 putative trimer interface [polypeptide binding]; other site 300269000121 putative metal binding site [ion binding]; other site 300269000122 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 300269000123 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 300269000124 substrate binding site [chemical binding]; other site 300269000125 oxyanion hole (OAH) forming residues; other site 300269000126 trimer interface [polypeptide binding]; other site 300269000127 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 300269000128 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 300269000129 acyl-activating enzyme (AAE) consensus motif; other site 300269000130 putative AMP binding site [chemical binding]; other site 300269000131 putative active site [active] 300269000132 putative CoA binding site [chemical binding]; other site 300269000133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000134 Transposase; Region: HTH_Tnp_1; pfam01527 300269000135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269000136 Integrase core domain; Region: rve; pfam00665 300269000137 Integrase core domain; Region: rve_3; pfam13683 300269000138 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 300269000139 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 300269000140 active site 300269000141 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 300269000142 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 300269000143 Ligand binding site [chemical binding]; other site 300269000144 Electron transfer flavoprotein domain; Region: ETF; pfam01012 300269000145 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 300269000146 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 300269000147 Ligand binding site [chemical binding]; other site 300269000148 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 300269000149 putative oxidoreductase FixC; Provisional; Region: PRK10157 300269000150 ferredoxin-like protein FixX; Provisional; Region: PRK15449 300269000151 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 300269000152 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 300269000153 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 300269000154 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 300269000155 TrkA-N domain; Region: TrkA_N; pfam02254 300269000156 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 300269000157 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 300269000158 folate binding site [chemical binding]; other site 300269000159 NADP+ binding site [chemical binding]; other site 300269000160 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 300269000161 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 300269000162 active site 300269000163 metal binding site [ion binding]; metal-binding site 300269000164 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 300269000165 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 300269000166 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 300269000167 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 300269000168 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 300269000169 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 300269000170 SurA N-terminal domain; Region: SurA_N; pfam09312 300269000171 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 300269000172 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 300269000173 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 300269000174 OstA-like protein; Region: OstA; pfam03968 300269000175 Organic solvent tolerance protein; Region: OstA_C; pfam04453 300269000176 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 300269000177 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 300269000178 putative metal binding site [ion binding]; other site 300269000179 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 300269000180 HSP70 interaction site [polypeptide binding]; other site 300269000181 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 300269000182 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 300269000183 active site 300269000184 ATP-dependent helicase HepA; Validated; Region: PRK04914 300269000185 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 300269000186 ATP binding site [chemical binding]; other site 300269000187 putative Mg++ binding site [ion binding]; other site 300269000188 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 300269000189 nucleotide binding region [chemical binding]; other site 300269000190 ATP-binding site [chemical binding]; other site 300269000191 DNA polymerase II; Reviewed; Region: PRK05762 300269000192 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 300269000193 active site 300269000194 catalytic site [active] 300269000195 substrate binding site [chemical binding]; other site 300269000196 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 300269000197 active site 300269000198 metal-binding site 300269000199 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 300269000200 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 300269000201 intersubunit interface [polypeptide binding]; other site 300269000202 active site 300269000203 Zn2+ binding site [ion binding]; other site 300269000204 L-arabinose isomerase; Provisional; Region: PRK02929 300269000205 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 300269000206 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 300269000207 trimer interface [polypeptide binding]; other site 300269000208 putative substrate binding site [chemical binding]; other site 300269000209 putative metal binding site [ion binding]; other site 300269000210 ribulokinase; Provisional; Region: PRK04123 300269000211 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 300269000212 N- and C-terminal domain interface [polypeptide binding]; other site 300269000213 active site 300269000214 MgATP binding site [chemical binding]; other site 300269000215 catalytic site [active] 300269000216 metal binding site [ion binding]; metal-binding site 300269000217 carbohydrate binding site [chemical binding]; other site 300269000218 homodimer interface [polypeptide binding]; other site 300269000219 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 300269000220 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 300269000221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269000222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269000223 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 300269000224 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 300269000225 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 300269000226 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 300269000227 Walker A/P-loop; other site 300269000228 ATP binding site [chemical binding]; other site 300269000229 Q-loop/lid; other site 300269000230 ABC transporter signature motif; other site 300269000231 Walker B; other site 300269000232 D-loop; other site 300269000233 H-loop/switch region; other site 300269000234 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 300269000235 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 300269000236 dimer interface [polypeptide binding]; other site 300269000237 conserved gate region; other site 300269000238 putative PBP binding loops; other site 300269000239 ABC-ATPase subunit interface; other site 300269000240 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 300269000241 dimer interface [polypeptide binding]; other site 300269000242 conserved gate region; other site 300269000243 putative PBP binding loops; other site 300269000244 ABC-ATPase subunit interface; other site 300269000245 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 300269000246 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 300269000247 transcriptional regulator SgrR; Provisional; Region: PRK13626 300269000248 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 300269000249 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 300269000250 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269000251 sugar efflux transporter; Region: 2A0120; TIGR00899 300269000252 putative substrate translocation pore; other site 300269000253 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000254 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 300269000255 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 300269000256 substrate binding site [chemical binding]; other site 300269000257 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 300269000258 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 300269000259 substrate binding site [chemical binding]; other site 300269000260 ligand binding site [chemical binding]; other site 300269000261 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 300269000262 tartrate dehydrogenase; Region: TTC; TIGR02089 300269000263 2-isopropylmalate synthase; Validated; Region: PRK00915 300269000264 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 300269000265 active site 300269000266 catalytic residues [active] 300269000267 metal binding site [ion binding]; metal-binding site 300269000268 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 300269000269 leu operon leader peptide; Provisional; Region: PRK09925 300269000270 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 300269000271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269000272 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 300269000273 putative substrate binding pocket [chemical binding]; other site 300269000274 putative dimerization interface [polypeptide binding]; other site 300269000275 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 300269000276 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 300269000277 PYR/PP interface [polypeptide binding]; other site 300269000278 dimer interface [polypeptide binding]; other site 300269000279 TPP binding site [chemical binding]; other site 300269000280 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 300269000281 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 300269000282 TPP-binding site [chemical binding]; other site 300269000283 dimer interface [polypeptide binding]; other site 300269000284 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 300269000285 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 300269000286 putative valine binding site [chemical binding]; other site 300269000287 dimer interface [polypeptide binding]; other site 300269000288 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 300269000289 similar to fruR leader peptide 300269000290 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 300269000291 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269000292 DNA binding site [nucleotide binding] 300269000293 domain linker motif; other site 300269000294 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 300269000295 dimerization interface [polypeptide binding]; other site 300269000296 ligand binding site [chemical binding]; other site 300269000297 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269000298 mraZ protein; Region: TIGR00242 300269000299 MraZ protein; Region: MraZ; pfam02381 300269000300 MraZ protein; Region: MraZ; pfam02381 300269000301 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 300269000302 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 300269000303 cell division protein FtsL; Provisional; Region: PRK10772 300269000304 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 300269000305 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 300269000306 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 300269000307 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 300269000308 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 300269000309 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269000310 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269000311 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 300269000312 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 300269000313 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269000314 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269000315 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 300269000316 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 300269000317 Mg++ binding site [ion binding]; other site 300269000318 putative catalytic motif [active] 300269000319 putative substrate binding site [chemical binding]; other site 300269000320 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 300269000321 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269000322 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269000323 cell division protein FtsW; Provisional; Region: PRK10774 300269000324 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 300269000325 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 300269000326 active site 300269000327 homodimer interface [polypeptide binding]; other site 300269000328 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 300269000329 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 300269000330 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269000331 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269000332 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 300269000333 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 300269000334 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 300269000335 cell division protein FtsQ; Provisional; Region: PRK10775 300269000336 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 300269000337 Cell division protein FtsQ; Region: FtsQ; pfam03799 300269000338 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 300269000339 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269000340 Cell division protein FtsA; Region: FtsA; pfam14450 300269000341 cell division protein FtsZ; Validated; Region: PRK09330 300269000342 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 300269000343 nucleotide binding site [chemical binding]; other site 300269000344 SulA interaction site; other site 300269000345 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 300269000346 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 300269000347 SecA regulator SecM; Provisional; Region: PRK02943 300269000348 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 300269000349 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 300269000350 SEC-C motif; Region: SEC-C; pfam02810 300269000351 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 300269000352 active site 300269000353 8-oxo-dGMP binding site [chemical binding]; other site 300269000354 nudix motif; other site 300269000355 metal binding site [ion binding]; metal-binding site 300269000356 DNA gyrase inhibitor; Reviewed; Region: PRK00418 300269000357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 300269000358 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 300269000359 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 300269000360 CoA-binding site [chemical binding]; other site 300269000361 ATP-binding [chemical binding]; other site 300269000362 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 300269000363 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 300269000364 active site 300269000365 type IV pilin biogenesis protein; Provisional; Region: PRK10573 300269000366 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 300269000367 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 300269000368 putative major pilin subunit; Provisional; Region: PRK10574 300269000369 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 300269000370 Pilin (bacterial filament); Region: Pilin; pfam00114 300269000371 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 300269000372 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 300269000373 dimerization interface [polypeptide binding]; other site 300269000374 active site 300269000375 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 300269000376 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 300269000377 amidase catalytic site [active] 300269000378 Zn binding residues [ion binding]; other site 300269000379 substrate binding site [chemical binding]; other site 300269000380 regulatory protein AmpE; Provisional; Region: PRK10987 300269000381 aromatic amino acid transporter; Provisional; Region: PRK10238 300269000382 Transcriptional regulators [Transcription]; Region: FadR; COG2186 300269000383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269000384 DNA-binding site [nucleotide binding]; DNA binding site 300269000385 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269000386 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 300269000387 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 300269000388 dimer interface [polypeptide binding]; other site 300269000389 TPP-binding site [chemical binding]; other site 300269000390 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 300269000391 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 300269000392 E3 interaction surface; other site 300269000393 lipoyl attachment site [posttranslational modification]; other site 300269000394 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 300269000395 E3 interaction surface; other site 300269000396 lipoyl attachment site [posttranslational modification]; other site 300269000397 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 300269000398 E3 interaction surface; other site 300269000399 lipoyl attachment site [posttranslational modification]; other site 300269000400 e3 binding domain; Region: E3_binding; pfam02817 300269000401 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 300269000402 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 300269000403 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 300269000404 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269000405 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 300269000406 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 300269000407 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 300269000408 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 300269000409 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 300269000410 substrate binding site [chemical binding]; other site 300269000411 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 300269000412 substrate binding site [chemical binding]; other site 300269000413 ligand binding site [chemical binding]; other site 300269000414 hypothetical protein; Provisional; Region: PRK05248 300269000415 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 300269000416 spermidine synthase; Provisional; Region: PRK00811 300269000417 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 300269000418 S-adenosylmethionine binding site [chemical binding]; other site 300269000419 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 300269000420 multicopper oxidase; Provisional; Region: PRK10965 300269000421 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 300269000422 Multicopper oxidase; Region: Cu-oxidase; pfam00394 300269000423 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 300269000424 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 300269000425 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 300269000426 Trp docking motif [polypeptide binding]; other site 300269000427 putative active site [active] 300269000428 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269000429 active site 300269000430 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 300269000431 active site clefts [active] 300269000432 zinc binding site [ion binding]; other site 300269000433 dimer interface [polypeptide binding]; other site 300269000434 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 300269000435 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 300269000436 Walker A/P-loop; other site 300269000437 ATP binding site [chemical binding]; other site 300269000438 Q-loop/lid; other site 300269000439 ABC transporter signature motif; other site 300269000440 Walker B; other site 300269000441 D-loop; other site 300269000442 H-loop/switch region; other site 300269000443 inner membrane transport permease; Provisional; Region: PRK15066 300269000444 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 300269000445 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 300269000446 active pocket/dimerization site; other site 300269000447 active site 300269000448 phosphorylation site [posttranslational modification] 300269000449 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 300269000450 putative active site [active] 300269000451 putative metal binding site [ion binding]; other site 300269000452 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 300269000453 tetramerization interface [polypeptide binding]; other site 300269000454 active site 300269000455 Uncharacterized conserved protein [Function unknown]; Region: COG5464 300269000456 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 300269000457 pantoate--beta-alanine ligase; Region: panC; TIGR00018 300269000458 Pantoate-beta-alanine ligase; Region: PanC; cd00560 300269000459 active site 300269000460 ATP-binding site [chemical binding]; other site 300269000461 pantoate-binding site; other site 300269000462 HXXH motif; other site 300269000463 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 300269000464 oligomerization interface [polypeptide binding]; other site 300269000465 active site 300269000466 metal binding site [ion binding]; metal-binding site 300269000467 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000468 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269000469 HTH-like domain; Region: HTH_21; pfam13276 300269000470 Integrase core domain; Region: rve; pfam00665 300269000471 Integrase core domain; Region: rve_3; pfam13683 300269000472 putative fimbrial protein StaF; Provisional; Region: PRK15262 300269000473 putative fimbrial protein StaE; Provisional; Region: PRK15263 300269000474 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269000475 HTH-like domain; Region: HTH_21; pfam13276 300269000476 Integrase core domain; Region: rve; pfam00665 300269000477 Integrase core domain; Region: rve_3; pfam13683 300269000478 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269000479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000480 Homeodomain-like domain; Region: HTH_23; pfam13384 300269000481 Winged helix-turn helix; Region: HTH_29; pfam13551 300269000482 Homeodomain-like domain; Region: HTH_32; pfam13565 300269000483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269000484 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269000485 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000486 putative chaperone protein EcpD; Provisional; Region: PRK09926 300269000487 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269000488 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269000489 Fimbrial protein; Region: Fimbrial; cl01416 300269000490 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 300269000491 catalytic center binding site [active] 300269000492 ATP binding site [chemical binding]; other site 300269000493 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 300269000494 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 300269000495 active site 300269000496 NTP binding site [chemical binding]; other site 300269000497 metal binding triad [ion binding]; metal-binding site 300269000498 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 300269000499 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 300269000500 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 300269000501 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 300269000502 active site 300269000503 nucleotide binding site [chemical binding]; other site 300269000504 HIGH motif; other site 300269000505 KMSKS motif; other site 300269000506 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 300269000507 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 300269000508 2'-5' RNA ligase; Provisional; Region: PRK15124 300269000509 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 300269000510 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 300269000511 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 300269000512 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 300269000513 ATP binding site [chemical binding]; other site 300269000514 putative Mg++ binding site [ion binding]; other site 300269000515 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 300269000516 nucleotide binding region [chemical binding]; other site 300269000517 ATP-binding site [chemical binding]; other site 300269000518 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 300269000519 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 300269000520 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 300269000521 Transglycosylase; Region: Transgly; pfam00912 300269000522 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 300269000523 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 300269000524 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 300269000525 N-terminal plug; other site 300269000526 ligand-binding site [chemical binding]; other site 300269000527 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 300269000528 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 300269000529 Walker A/P-loop; other site 300269000530 ATP binding site [chemical binding]; other site 300269000531 Q-loop/lid; other site 300269000532 ABC transporter signature motif; other site 300269000533 Walker B; other site 300269000534 D-loop; other site 300269000535 H-loop/switch region; other site 300269000536 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 300269000537 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 300269000538 siderophore binding site; other site 300269000539 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 300269000540 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 300269000541 ABC-ATPase subunit interface; other site 300269000542 dimer interface [polypeptide binding]; other site 300269000543 putative PBP binding regions; other site 300269000544 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 300269000545 ABC-ATPase subunit interface; other site 300269000546 dimer interface [polypeptide binding]; other site 300269000547 putative PBP binding regions; other site 300269000548 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 300269000549 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 300269000550 inhibitor-cofactor binding pocket; inhibition site 300269000551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269000552 catalytic residue [active] 300269000553 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 300269000554 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 300269000555 Cl- selectivity filter; other site 300269000556 Cl- binding residues [ion binding]; other site 300269000557 pore gating glutamate residue; other site 300269000558 dimer interface [polypeptide binding]; other site 300269000559 H+/Cl- coupling transport residue; other site 300269000560 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 300269000561 hypothetical protein; Provisional; Region: PRK10578 300269000562 UPF0126 domain; Region: UPF0126; pfam03458 300269000563 UPF0126 domain; Region: UPF0126; pfam03458 300269000564 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 300269000565 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 300269000566 cobalamin binding residues [chemical binding]; other site 300269000567 putative BtuC binding residues; other site 300269000568 dimer interface [polypeptide binding]; other site 300269000569 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 300269000570 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 300269000571 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000572 serine endoprotease; Provisional; Region: PRK10942 300269000573 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 300269000574 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 300269000575 protein binding site [polypeptide binding]; other site 300269000576 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 300269000577 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 300269000578 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 300269000579 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 300269000580 hypothetical protein; Provisional; Region: PRK13677 300269000581 phosphodiesterase YaeI; Provisional; Region: PRK11340 300269000582 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 300269000583 putative active site [active] 300269000584 putative metal binding site [ion binding]; other site 300269000585 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 300269000586 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 300269000587 trimer interface [polypeptide binding]; other site 300269000588 active site 300269000589 substrate binding site [chemical binding]; other site 300269000590 CoA binding site [chemical binding]; other site 300269000591 PII uridylyl-transferase; Provisional; Region: PRK05007 300269000592 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 300269000593 metal binding triad; other site 300269000594 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 300269000595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 300269000596 Zn2+ binding site [ion binding]; other site 300269000597 Mg2+ binding site [ion binding]; other site 300269000598 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 300269000599 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 300269000600 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 300269000601 active site 300269000602 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 300269000603 rRNA interaction site [nucleotide binding]; other site 300269000604 S8 interaction site; other site 300269000605 putative laminin-1 binding site; other site 300269000606 elongation factor Ts; Provisional; Region: tsf; PRK09377 300269000607 UBA/TS-N domain; Region: UBA; pfam00627 300269000608 Elongation factor TS; Region: EF_TS; pfam00889 300269000609 Elongation factor TS; Region: EF_TS; pfam00889 300269000610 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 300269000611 putative nucleotide binding site [chemical binding]; other site 300269000612 uridine monophosphate binding site [chemical binding]; other site 300269000613 homohexameric interface [polypeptide binding]; other site 300269000614 ribosome recycling factor; Reviewed; Region: frr; PRK00083 300269000615 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 300269000616 hinge region; other site 300269000617 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 300269000618 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 300269000619 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 300269000620 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 300269000621 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 300269000622 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 300269000623 catalytic residue [active] 300269000624 putative FPP diphosphate binding site; other site 300269000625 putative FPP binding hydrophobic cleft; other site 300269000626 dimer interface [polypeptide binding]; other site 300269000627 putative IPP diphosphate binding site; other site 300269000628 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 300269000629 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 300269000630 zinc metallopeptidase RseP; Provisional; Region: PRK10779 300269000631 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 300269000632 active site 300269000633 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 300269000634 protein binding site [polypeptide binding]; other site 300269000635 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 300269000636 putative substrate binding region [chemical binding]; other site 300269000637 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 300269000638 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269000639 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269000640 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269000641 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269000642 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269000643 Surface antigen; Region: Bac_surface_Ag; pfam01103 300269000644 periplasmic chaperone; Provisional; Region: PRK10780 300269000645 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 300269000646 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 300269000647 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 300269000648 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 300269000649 trimer interface [polypeptide binding]; other site 300269000650 active site 300269000651 UDP-GlcNAc binding site [chemical binding]; other site 300269000652 lipid binding site [chemical binding]; lipid-binding site 300269000653 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 300269000654 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 300269000655 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 300269000656 active site 300269000657 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 300269000658 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 300269000659 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 300269000660 RNA/DNA hybrid binding site [nucleotide binding]; other site 300269000661 active site 300269000662 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 300269000663 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 300269000664 putative active site [active] 300269000665 putative PHP Thumb interface [polypeptide binding]; other site 300269000666 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 300269000667 generic binding surface II; other site 300269000668 generic binding surface I; other site 300269000669 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 300269000670 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 300269000671 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269000672 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269000673 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269000674 lysine decarboxylase LdcC; Provisional; Region: PRK15399 300269000675 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 300269000676 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 300269000677 homodimer interface [polypeptide binding]; other site 300269000678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269000679 catalytic residue [active] 300269000680 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 300269000681 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 300269000682 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 300269000683 putative metal binding site [ion binding]; other site 300269000684 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 300269000685 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 300269000686 Ligand Binding Site [chemical binding]; other site 300269000687 TilS substrate binding domain; Region: TilS; pfam09179 300269000688 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 300269000689 Rho-binding antiterminator; Provisional; Region: PRK11625 300269000690 hypothetical protein; Provisional; Region: PRK04964 300269000691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 300269000692 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 300269000693 NlpE N-terminal domain; Region: NlpE; pfam04170 300269000694 hypothetical protein; Provisional; Region: PRK11479 300269000695 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 300269000696 NlpC/P60 family; Region: NLPC_P60; cl17555 300269000697 prolyl-tRNA synthetase; Provisional; Region: PRK09194 300269000698 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 300269000699 dimer interface [polypeptide binding]; other site 300269000700 motif 1; other site 300269000701 active site 300269000702 motif 2; other site 300269000703 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 300269000704 putative deacylase active site [active] 300269000705 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 300269000706 active site 300269000707 motif 3; other site 300269000708 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 300269000709 anticodon binding site; other site 300269000710 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 300269000711 homodimer interaction site [polypeptide binding]; other site 300269000712 cofactor binding site; other site 300269000713 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 300269000714 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 300269000715 lipoprotein, YaeC family; Region: TIGR00363 300269000716 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 300269000717 dimer interface [polypeptide binding]; other site 300269000718 conserved gate region; other site 300269000719 ABC-ATPase subunit interface; other site 300269000720 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 300269000721 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 300269000722 Walker A/P-loop; other site 300269000723 ATP binding site [chemical binding]; other site 300269000724 Q-loop/lid; other site 300269000725 ABC transporter signature motif; other site 300269000726 Walker B; other site 300269000727 D-loop; other site 300269000728 H-loop/switch region; other site 300269000729 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 300269000730 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 300269000731 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 300269000732 active site 300269000733 motif I; other site 300269000734 motif II; other site 300269000735 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 300269000736 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269000737 active site 300269000738 catalytic tetrad [active] 300269000739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269000740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269000741 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 300269000742 putative effector binding pocket; other site 300269000743 dimerization interface [polypeptide binding]; other site 300269000744 hypothetical protein; Provisional; Region: PRK05421 300269000745 putative catalytic site [active] 300269000746 putative metal binding site [ion binding]; other site 300269000747 putative phosphate binding site [ion binding]; other site 300269000748 putative catalytic site [active] 300269000749 putative phosphate binding site [ion binding]; other site 300269000750 putative metal binding site [ion binding]; other site 300269000751 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 300269000752 S-adenosylmethionine binding site [chemical binding]; other site 300269000753 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 300269000754 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 300269000755 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269000756 catalytic residue [active] 300269000757 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269000758 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269000759 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 300269000760 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 300269000761 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 300269000762 RNA/DNA hybrid binding site [nucleotide binding]; other site 300269000763 active site 300269000764 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 300269000765 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 300269000766 active site 300269000767 catalytic site [active] 300269000768 substrate binding site [chemical binding]; other site 300269000769 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 300269000770 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 300269000771 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 300269000772 ImpA domain protein; Region: DUF3702; pfam12486 300269000773 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 300269000774 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 300269000775 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269000776 HTH-like domain; Region: HTH_21; pfam13276 300269000777 Integrase core domain; Region: rve; pfam00665 300269000778 Integrase core domain; Region: rve_3; pfam13683 300269000779 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269000780 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000781 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 300269000782 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 300269000783 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 300269000784 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 300269000785 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 300269000786 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 300269000787 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 300269000788 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 300269000789 Walker A motif; other site 300269000790 ATP binding site [chemical binding]; other site 300269000791 Walker B motif; other site 300269000792 arginine finger; other site 300269000793 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 300269000794 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 300269000795 Walker A motif; other site 300269000796 ATP binding site [chemical binding]; other site 300269000797 Walker B motif; other site 300269000798 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 300269000799 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 300269000800 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 300269000801 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 300269000802 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 300269000803 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 300269000804 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 300269000805 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 300269000806 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 300269000807 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 300269000808 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 300269000809 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 300269000810 Protein of unknown function (DUF877); Region: DUF877; pfam05943 300269000811 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 300269000812 Protein of unknown function (DUF877); Region: DUF877; pfam05943 300269000813 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 300269000814 Protein of unknown function (DUF770); Region: DUF770; pfam05591 300269000815 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 300269000816 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 300269000817 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 300269000818 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 300269000819 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 300269000820 PAAR motif; Region: PAAR_motif; cl15808 300269000821 RHS Repeat; Region: RHS_repeat; pfam05593 300269000822 RHS Repeat; Region: RHS_repeat; pfam05593 300269000823 RHS Repeat; Region: RHS_repeat; cl11982 300269000824 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269000825 RHS Repeat; Region: RHS_repeat; pfam05593 300269000826 RHS Repeat; Region: RHS_repeat; pfam05593 300269000827 RHS Repeat; Region: RHS_repeat; cl11982 300269000828 RHS protein; Region: RHS; pfam03527 300269000829 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269000830 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269000831 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269000832 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269000833 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 300269000834 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269000835 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269000836 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269000837 C-N hydrolase family amidase; Provisional; Region: PRK10438 300269000838 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 300269000839 putative active site [active] 300269000840 catalytic triad [active] 300269000841 dimer interface [polypeptide binding]; other site 300269000842 multimer interface [polypeptide binding]; other site 300269000843 C-lysozyme inhibitor; Provisional; Region: PRK09993 300269000844 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 300269000845 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 300269000846 active site 300269000847 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 300269000848 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 300269000849 dimer interface [polypeptide binding]; other site 300269000850 active site 300269000851 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 300269000852 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 300269000853 putative active site [active] 300269000854 putative dimer interface [polypeptide binding]; other site 300269000855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 300269000856 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269000857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 300269000858 RelB antitoxin; Region: RelB; cl01171 300269000859 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 300269000860 NlpC/P60 family; Region: NLPC_P60; pfam00877 300269000861 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 300269000863 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 300269000864 FHIPEP family; Region: FHIPEP; pfam00771 300269000865 hypothetical protein; Validated; Region: PRK06778 300269000866 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269000867 ligand binding site [chemical binding]; other site 300269000868 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 300269000869 active site 300269000870 DNA polymerase IV; Validated; Region: PRK02406 300269000871 DNA binding site [nucleotide binding] 300269000872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 300269000873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269000874 Coenzyme A binding pocket [chemical binding]; other site 300269000875 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269000876 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269000877 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 300269000878 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 300269000879 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 300269000880 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 300269000881 metal binding site [ion binding]; metal-binding site 300269000882 dimer interface [polypeptide binding]; other site 300269000883 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269000884 active site 300269000885 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 300269000886 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 300269000887 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269000888 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 300269000889 trimer interface [polypeptide binding]; other site 300269000890 eyelet of channel; other site 300269000891 gamma-glutamyl kinase; Provisional; Region: PRK05429 300269000892 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 300269000893 nucleotide binding site [chemical binding]; other site 300269000894 homotetrameric interface [polypeptide binding]; other site 300269000895 putative phosphate binding site [ion binding]; other site 300269000896 putative allosteric binding site; other site 300269000897 PUA domain; Region: PUA; pfam01472 300269000898 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 300269000899 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 300269000900 putative catalytic cysteine [active] 300269000901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269000902 Integrase core domain; Region: rve; pfam00665 300269000903 Integrase core domain; Region: rve_3; pfam13683 300269000904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000905 Transposase; Region: HTH_Tnp_1; pfam01527 300269000906 Homeodomain-like domain; Region: HTH_23; pfam13384 300269000907 Winged helix-turn helix; Region: HTH_29; pfam13551 300269000908 Homeodomain-like domain; Region: HTH_32; pfam13565 300269000909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269000910 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269000911 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000913 Transposase; Region: HTH_Tnp_1; pfam01527 300269000914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269000915 Integrase core domain; Region: rve; pfam00665 300269000916 Integrase core domain; Region: rve_3; pfam13683 300269000917 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 300269000918 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 300269000919 putative active site [active] 300269000920 Fe(II) binding site [ion binding]; other site 300269000921 putative dimer interface [polypeptide binding]; other site 300269000922 putative tetramer interface [polypeptide binding]; other site 300269000923 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 300269000924 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 300269000925 lac repressor; Reviewed; Region: lacI; PRK09526 300269000926 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269000927 DNA binding site [nucleotide binding] 300269000928 domain linker motif; other site 300269000929 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 300269000930 ligand binding site [chemical binding]; other site 300269000931 dimerization interface (open form) [polypeptide binding]; other site 300269000932 dimerization interface (closed form) [polypeptide binding]; other site 300269000933 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 300269000934 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 300269000935 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 300269000936 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 300269000937 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 300269000938 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000939 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 300269000940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000941 Transposase; Region: HTH_Tnp_1; pfam01527 300269000942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269000943 Integrase core domain; Region: rve; pfam00665 300269000944 Integrase core domain; Region: rve_3; pfam13683 300269000945 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000946 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 300269000947 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 300269000948 putative NAD(P) binding site [chemical binding]; other site 300269000949 putative substrate binding site [chemical binding]; other site 300269000950 catalytic Zn binding site [ion binding]; other site 300269000951 structural Zn binding site [ion binding]; other site 300269000952 dimer interface [polypeptide binding]; other site 300269000953 putative deaminase; Validated; Region: PRK06846 300269000954 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 300269000955 active site 300269000956 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 300269000957 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 300269000958 putative substrate binding site [chemical binding]; other site 300269000959 nucleotide binding site [chemical binding]; other site 300269000960 nucleotide binding site [chemical binding]; other site 300269000961 homodimer interface [polypeptide binding]; other site 300269000962 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 300269000963 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 300269000964 CoA binding domain; Region: CoA_binding; pfam02629 300269000965 CoA-ligase; Region: Ligase_CoA; pfam00549 300269000966 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 300269000967 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269000968 Uncharacterized conserved protein [Function unknown]; Region: COG1556 300269000969 iron-sulfur cluster-binding protein; Region: TIGR00273 300269000970 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 300269000971 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269000972 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 300269000973 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 300269000974 Cysteine-rich domain; Region: CCG; pfam02754 300269000975 Cysteine-rich domain; Region: CCG; pfam02754 300269000976 Cupin; Region: Cupin_6; pfam12852 300269000977 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 300269000978 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269000979 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 300269000980 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 300269000981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269000982 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 300269000983 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269000984 Predicted membrane protein [Function unknown]; Region: COG3059 300269000985 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 300269000986 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269000987 active site 300269000988 catalytic tetrad [active] 300269000989 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269000990 HTH-like domain; Region: HTH_21; pfam13276 300269000991 Integrase core domain; Region: rve; pfam00665 300269000992 Integrase core domain; Region: rve_3; pfam13683 300269000993 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269000994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269000996 Integrase core domain; Region: rve; pfam00665 300269000997 Integrase core domain; Region: rve_3; pfam13683 300269000998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269000999 Transposase; Region: HTH_Tnp_1; pfam01527 300269001000 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 300269001001 acetaldehyde dehydrogenase; Validated; Region: PRK08300 300269001002 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 300269001003 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 300269001004 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 300269001005 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 300269001006 active site 300269001007 catalytic residues [active] 300269001008 metal binding site [ion binding]; metal-binding site 300269001009 DmpG-like communication domain; Region: DmpG_comm; pfam07836 300269001010 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 300269001011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 300269001014 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 300269001015 S-formylglutathione hydrolase; Region: PLN02442 300269001016 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 300269001017 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 300269001018 substrate binding site [chemical binding]; other site 300269001019 catalytic Zn binding site [ion binding]; other site 300269001020 NAD binding site [chemical binding]; other site 300269001021 structural Zn binding site [ion binding]; other site 300269001022 dimer interface [polypeptide binding]; other site 300269001023 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 300269001024 putative metal binding site [ion binding]; other site 300269001025 putative homodimer interface [polypeptide binding]; other site 300269001026 putative homotetramer interface [polypeptide binding]; other site 300269001027 putative homodimer-homodimer interface [polypeptide binding]; other site 300269001028 putative allosteric switch controlling residues; other site 300269001029 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 300269001030 putative trimer interface [polypeptide binding]; other site 300269001031 putative CoA binding site [chemical binding]; other site 300269001032 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 300269001033 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269001034 HTH-like domain; Region: HTH_21; pfam13276 300269001035 Integrase core domain; Region: rve; pfam00665 300269001036 Integrase core domain; Region: rve_3; pfam13683 300269001037 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269001038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269001039 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 300269001040 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 300269001041 substrate binding pocket [chemical binding]; other site 300269001042 membrane-bound complex binding site; other site 300269001043 hinge residues; other site 300269001044 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 300269001045 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 300269001046 Walker A/P-loop; other site 300269001047 ATP binding site [chemical binding]; other site 300269001048 Q-loop/lid; other site 300269001049 ABC transporter signature motif; other site 300269001050 Walker B; other site 300269001051 D-loop; other site 300269001052 H-loop/switch region; other site 300269001053 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 300269001054 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 300269001055 dimer interface [polypeptide binding]; other site 300269001056 conserved gate region; other site 300269001057 putative PBP binding loops; other site 300269001058 ABC-ATPase subunit interface; other site 300269001059 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 300269001060 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 300269001061 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 300269001062 dimer interface [polypeptide binding]; other site 300269001063 active site 300269001064 Schiff base residues; other site 300269001065 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 300269001066 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 300269001067 Autotransporter beta-domain; Region: Autotransporter; pfam03797 300269001068 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 300269001069 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 300269001070 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 300269001071 microcin B17 transporter; Reviewed; Region: PRK11098 300269001072 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 300269001073 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 300269001074 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 300269001075 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 300269001076 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 300269001077 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 300269001078 anti-RssB factor; Provisional; Region: PRK10244 300269001079 alkaline phosphatase; Provisional; Region: PRK10518 300269001080 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 300269001081 dimer interface [polypeptide binding]; other site 300269001082 active site 300269001083 hypothetical protein; Provisional; Region: PRK11505 300269001084 psiF repeat; Region: PsiF_repeat; pfam07769 300269001085 psiF repeat; Region: PsiF_repeat; pfam07769 300269001086 MASE2 domain; Region: MASE2; pfam05230 300269001087 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269001088 metal binding site [ion binding]; metal-binding site 300269001089 active site 300269001090 I-site; other site 300269001091 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001092 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 300269001093 pyrroline-5-carboxylate reductase; Region: PLN02688 300269001094 hypothetical protein; Validated; Region: PRK00124 300269001095 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 300269001096 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 300269001097 ADP binding site [chemical binding]; other site 300269001098 magnesium binding site [ion binding]; other site 300269001099 putative shikimate binding site; other site 300269001100 hypothetical protein; Provisional; Region: PRK10380 300269001101 hypothetical protein; Provisional; Region: PRK10481 300269001102 hypothetical protein; Provisional; Region: PRK10579 300269001103 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269001104 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269001105 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269001106 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 300269001107 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 300269001108 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 300269001109 fructokinase; Reviewed; Region: PRK09557 300269001110 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269001111 nucleotide binding site [chemical binding]; other site 300269001112 MFS transport protein AraJ; Provisional; Region: PRK10091 300269001113 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001114 putative substrate translocation pore; other site 300269001115 exonuclease subunit SbcC; Provisional; Region: PRK10246 300269001116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269001117 Walker A/P-loop; other site 300269001118 ATP binding site [chemical binding]; other site 300269001119 Q-loop/lid; other site 300269001120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269001121 ABC transporter signature motif; other site 300269001122 Walker B; other site 300269001123 D-loop; other site 300269001124 H-loop/switch region; other site 300269001125 exonuclease subunit SbcD; Provisional; Region: PRK10966 300269001126 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 300269001127 active site 300269001128 metal binding site [ion binding]; metal-binding site 300269001129 DNA binding site [nucleotide binding] 300269001130 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 300269001131 transcriptional regulator PhoB; Provisional; Region: PRK10161 300269001132 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 300269001133 active site 300269001134 phosphorylation site [posttranslational modification] 300269001135 intermolecular recognition site; other site 300269001136 dimerization interface [polypeptide binding]; other site 300269001137 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 300269001138 DNA binding site [nucleotide binding] 300269001139 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 300269001140 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 300269001141 PAS domain; Region: PAS; smart00091 300269001142 putative active site [active] 300269001143 heme pocket [chemical binding]; other site 300269001144 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 300269001145 dimer interface [polypeptide binding]; other site 300269001146 phosphorylation site [posttranslational modification] 300269001147 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 300269001148 ATP binding site [chemical binding]; other site 300269001149 Mg2+ binding site [ion binding]; other site 300269001150 G-X-G motif; other site 300269001151 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 300269001152 putative proline-specific permease; Provisional; Region: proY; PRK10580 300269001153 Spore germination protein; Region: Spore_permease; cl17796 300269001154 maltodextrin glucosidase; Provisional; Region: PRK10785 300269001155 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 300269001156 homodimer interface [polypeptide binding]; other site 300269001157 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 300269001158 active site 300269001159 homodimer interface [polypeptide binding]; other site 300269001160 catalytic site [active] 300269001161 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 300269001162 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 300269001163 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 300269001164 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 300269001165 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 300269001166 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 300269001167 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 300269001168 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 300269001169 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 300269001170 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 300269001171 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 300269001172 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 300269001173 Protein export membrane protein; Region: SecD_SecF; pfam02355 300269001174 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 300269001175 active site 300269001176 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 300269001177 hypothetical protein; Provisional; Region: PRK11530 300269001178 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 300269001179 ATP cone domain; Region: ATP-cone; pfam03477 300269001180 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 300269001181 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 300269001182 catalytic motif [active] 300269001183 Zn binding site [ion binding]; other site 300269001184 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 300269001185 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 300269001186 homopentamer interface [polypeptide binding]; other site 300269001187 active site 300269001188 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 300269001189 putative RNA binding site [nucleotide binding]; other site 300269001190 thiamine monophosphate kinase; Provisional; Region: PRK05731 300269001191 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 300269001192 ATP binding site [chemical binding]; other site 300269001193 dimerization interface [polypeptide binding]; other site 300269001194 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 300269001195 tetramer interfaces [polypeptide binding]; other site 300269001196 binuclear metal-binding site [ion binding]; other site 300269001197 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 300269001198 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269001199 active site 300269001200 catalytic tetrad [active] 300269001201 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 300269001202 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 300269001203 TPP-binding site; other site 300269001204 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 300269001205 PYR/PP interface [polypeptide binding]; other site 300269001206 dimer interface [polypeptide binding]; other site 300269001207 TPP binding site [chemical binding]; other site 300269001208 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 300269001209 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 300269001210 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 300269001211 substrate binding pocket [chemical binding]; other site 300269001212 chain length determination region; other site 300269001213 substrate-Mg2+ binding site; other site 300269001214 catalytic residues [active] 300269001215 aspartate-rich region 1; other site 300269001216 active site lid residues [active] 300269001217 aspartate-rich region 2; other site 300269001218 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 300269001219 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 300269001220 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 300269001221 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 300269001222 Ligand Binding Site [chemical binding]; other site 300269001223 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 300269001224 active site residue [active] 300269001225 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 300269001226 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 300269001227 conserved cys residue [active] 300269001228 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 300269001229 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 300269001230 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 300269001231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 300269001232 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 300269001233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001234 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269001235 putative substrate translocation pore; other site 300269001236 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001237 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 300269001238 Sel1 repeat; Region: Sel1; cl02723 300269001239 Sel1-like repeats; Region: SEL1; smart00671 300269001240 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001241 Sel1-like repeats; Region: SEL1; smart00671 300269001242 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 300269001243 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 300269001244 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 300269001245 UbiA prenyltransferase family; Region: UbiA; pfam01040 300269001246 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 300269001247 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 300269001248 Subunit I/III interface [polypeptide binding]; other site 300269001249 Subunit III/IV interface [polypeptide binding]; other site 300269001250 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 300269001251 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 300269001252 D-pathway; other site 300269001253 Putative ubiquinol binding site [chemical binding]; other site 300269001254 Low-spin heme (heme b) binding site [chemical binding]; other site 300269001255 Putative water exit pathway; other site 300269001256 Binuclear center (heme o3/CuB) [ion binding]; other site 300269001257 K-pathway; other site 300269001258 Putative proton exit pathway; other site 300269001259 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 300269001260 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 300269001261 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 300269001262 muropeptide transporter; Reviewed; Region: ampG; PRK11902 300269001263 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001264 putative substrate translocation pore; other site 300269001265 hypothetical protein; Provisional; Region: PRK11627 300269001266 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 300269001267 transcriptional regulator BolA; Provisional; Region: PRK11628 300269001268 trigger factor; Provisional; Region: tig; PRK01490 300269001269 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 300269001270 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 300269001271 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 300269001272 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 300269001273 oligomer interface [polypeptide binding]; other site 300269001274 active site residues [active] 300269001275 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 300269001276 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 300269001277 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 300269001278 Walker A motif; other site 300269001279 ATP binding site [chemical binding]; other site 300269001280 Walker B motif; other site 300269001281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 300269001282 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 300269001283 Found in ATP-dependent protease La (LON); Region: LON; smart00464 300269001284 Found in ATP-dependent protease La (LON); Region: LON; smart00464 300269001285 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 300269001286 Walker A motif; other site 300269001287 ATP binding site [chemical binding]; other site 300269001288 Walker B motif; other site 300269001289 arginine finger; other site 300269001290 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 300269001291 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 300269001292 IHF dimer interface [polypeptide binding]; other site 300269001293 IHF - DNA interface [nucleotide binding]; other site 300269001294 periplasmic folding chaperone; Provisional; Region: PRK10788 300269001295 SurA N-terminal domain; Region: SurA_N_3; cl07813 300269001296 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 300269001297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269001298 Transposase; Region: HTH_Tnp_1; pfam01527 300269001299 Integrase core domain; Region: rve; pfam00665 300269001300 transposase/IS protein; Provisional; Region: PRK09183 300269001301 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 300269001302 Walker A motif; other site 300269001303 ATP binding site [chemical binding]; other site 300269001304 Walker B motif; other site 300269001305 arginine finger; other site 300269001306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269001307 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269001308 Integrase core domain; Region: rve; pfam00665 300269001309 Integrase core domain; Region: rve_3; cl15866 300269001310 Integrase core domain; Region: rve_3; pfam13683 300269001311 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 300269001312 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 300269001313 active site 300269001314 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 300269001315 Ligand Binding Site [chemical binding]; other site 300269001316 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 300269001317 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 300269001318 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 300269001319 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 300269001320 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 300269001321 active site 300269001322 motif I; other site 300269001323 motif II; other site 300269001324 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 300269001325 dimerization interface [polypeptide binding]; other site 300269001326 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 300269001327 putative DNA binding site [nucleotide binding]; other site 300269001328 putative Zn2+ binding site [ion binding]; other site 300269001329 AsnC family; Region: AsnC_trans_reg; pfam01037 300269001330 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 300269001331 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 300269001332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269001333 Walker A/P-loop; other site 300269001334 ATP binding site [chemical binding]; other site 300269001335 Q-loop/lid; other site 300269001336 ABC transporter signature motif; other site 300269001337 Walker B; other site 300269001338 D-loop; other site 300269001339 H-loop/switch region; other site 300269001340 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 300269001341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 300269001342 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 300269001343 Walker A/P-loop; other site 300269001344 ATP binding site [chemical binding]; other site 300269001345 Q-loop/lid; other site 300269001346 ABC transporter signature motif; other site 300269001347 Walker B; other site 300269001348 D-loop; other site 300269001349 H-loop/switch region; other site 300269001350 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 300269001351 Nitrogen regulatory protein P-II; Region: P-II; smart00938 300269001352 ammonium transporter; Provisional; Region: PRK10666 300269001353 acyl-CoA thioesterase II; Provisional; Region: PRK10526 300269001354 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 300269001355 active site 300269001356 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 300269001357 catalytic triad [active] 300269001358 dimer interface [polypeptide binding]; other site 300269001359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 300269001360 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 300269001361 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 300269001362 DNA binding site [nucleotide binding] 300269001363 active site 300269001364 Uncharacterized conserved protein [Function unknown]; Region: COG5507 300269001365 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 300269001366 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 300269001367 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 300269001368 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 300269001369 maltose O-acetyltransferase; Provisional; Region: PRK10092 300269001370 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 300269001371 active site 300269001372 substrate binding site [chemical binding]; other site 300269001373 trimer interface [polypeptide binding]; other site 300269001374 CoA binding site [chemical binding]; other site 300269001375 gene expression modulator; Provisional; Region: PRK10945 300269001376 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 300269001377 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 300269001378 Protein export membrane protein; Region: SecD_SecF; cl14618 300269001379 Protein export membrane protein; Region: SecD_SecF; cl14618 300269001380 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 300269001381 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269001382 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269001383 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 300269001384 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269001385 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 300269001386 hypothetical protein; Provisional; Region: PRK11281 300269001387 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 300269001388 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 300269001389 Mechanosensitive ion channel; Region: MS_channel; pfam00924 300269001390 hypothetical protein; Provisional; Region: PRK11038 300269001391 primosomal replication protein N''; Provisional; Region: PRK10093 300269001392 hypothetical protein; Provisional; Region: PRK10527 300269001393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269001394 active site 300269001395 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 300269001396 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 300269001397 Walker A motif; other site 300269001398 ATP binding site [chemical binding]; other site 300269001399 Walker B motif; other site 300269001400 DNA polymerase III subunit delta'; Validated; Region: PRK08485 300269001401 arginine finger; other site 300269001402 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 300269001403 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 300269001404 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 300269001405 hypothetical protein; Validated; Region: PRK00153 300269001406 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 300269001407 RecR protein; Region: RecR; pfam02132 300269001408 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 300269001409 putative active site [active] 300269001410 putative metal-binding site [ion binding]; other site 300269001411 tetramer interface [polypeptide binding]; other site 300269001412 heat shock protein 90; Provisional; Region: PRK05218 300269001413 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 300269001414 ATP binding site [chemical binding]; other site 300269001415 Mg2+ binding site [ion binding]; other site 300269001416 G-X-G motif; other site 300269001417 adenylate kinase; Reviewed; Region: adk; PRK00279 300269001418 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 300269001419 AMP-binding site [chemical binding]; other site 300269001420 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 300269001421 ferrochelatase; Region: hemH; TIGR00109 300269001422 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 300269001423 C-terminal domain interface [polypeptide binding]; other site 300269001424 active site 300269001425 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 300269001426 active site 300269001427 N-terminal domain interface [polypeptide binding]; other site 300269001428 acetyl esterase; Provisional; Region: PRK10162 300269001429 inosine/guanosine kinase; Provisional; Region: PRK15074 300269001430 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269001431 putative cation:proton antiport protein; Provisional; Region: PRK10669 300269001432 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 300269001433 TrkA-N domain; Region: TrkA_N; pfam02254 300269001434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269001435 Integrase core domain; Region: rve; pfam00665 300269001436 Integrase core domain; Region: rve_3; pfam13683 300269001437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269001438 Transposase; Region: HTH_Tnp_1; pfam01527 300269001439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269001441 putative substrate translocation pore; other site 300269001442 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 300269001443 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 300269001444 active site 300269001445 metal binding site [ion binding]; metal-binding site 300269001446 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 300269001447 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 300269001448 putative deacylase active site [active] 300269001449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 300269001450 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 300269001451 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 300269001452 non-specific DNA binding site [nucleotide binding]; other site 300269001453 salt bridge; other site 300269001454 sequence-specific DNA binding site [nucleotide binding]; other site 300269001455 copper exporting ATPase; Provisional; Region: copA; PRK10671 300269001456 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 300269001457 metal-binding site [ion binding] 300269001458 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 300269001459 metal-binding site [ion binding] 300269001460 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 300269001461 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 300269001462 motif II; other site 300269001463 glutaminase; Reviewed; Region: PRK12356 300269001464 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 300269001465 amino acid transporter; Region: 2A0306; TIGR00909 300269001466 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 300269001467 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 300269001468 DNA binding residues [nucleotide binding] 300269001469 dimer interface [polypeptide binding]; other site 300269001470 copper binding site [ion binding]; other site 300269001471 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 300269001472 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 300269001473 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 300269001474 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 300269001475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269001476 Walker A/P-loop; other site 300269001477 ATP binding site [chemical binding]; other site 300269001478 Q-loop/lid; other site 300269001479 ABC transporter signature motif; other site 300269001480 Walker B; other site 300269001481 D-loop; other site 300269001482 H-loop/switch region; other site 300269001483 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 300269001484 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 300269001485 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 300269001486 oxidoreductase; Provisional; Region: PRK08017 300269001487 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 300269001488 NADP binding site [chemical binding]; other site 300269001489 active site 300269001490 steroid binding site; other site 300269001491 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 300269001492 active site 300269001493 catalytic triad [active] 300269001494 oxyanion hole [active] 300269001495 switch loop; other site 300269001496 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 300269001497 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 300269001498 Walker A/P-loop; other site 300269001499 ATP binding site [chemical binding]; other site 300269001500 Q-loop/lid; other site 300269001501 ABC transporter signature motif; other site 300269001502 Walker B; other site 300269001503 D-loop; other site 300269001504 H-loop/switch region; other site 300269001505 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 300269001506 FtsX-like permease family; Region: FtsX; pfam02687 300269001507 FtsX-like permease family; Region: FtsX; pfam02687 300269001508 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 300269001509 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 300269001510 active site residue [active] 300269001511 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001512 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 300269001513 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 300269001514 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 300269001515 homodimer interface [polypeptide binding]; other site 300269001516 NADP binding site [chemical binding]; other site 300269001517 substrate binding site [chemical binding]; other site 300269001518 ribosome-associated protein; Provisional; Region: PRK11507 300269001519 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 300269001520 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 300269001521 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 300269001522 active site 300269001523 HIGH motif; other site 300269001524 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 300269001525 KMSKS motif; other site 300269001526 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 300269001527 tRNA binding surface [nucleotide binding]; other site 300269001528 anticodon binding site; other site 300269001529 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 300269001530 substrate binding site [chemical binding]; other site 300269001531 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 300269001532 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 300269001533 putative active site [active] 300269001534 putative metal binding site [ion binding]; other site 300269001535 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 300269001536 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 300269001537 ATP-grasp domain; Region: ATP-grasp; pfam02222 300269001538 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 300269001539 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 300269001540 putative substrate binding site [chemical binding]; other site 300269001541 nucleotide binding site [chemical binding]; other site 300269001542 nucleotide binding site [chemical binding]; other site 300269001543 homodimer interface [polypeptide binding]; other site 300269001544 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 300269001545 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 300269001546 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001547 hydroxypyruvate isomerase; Provisional; Region: PRK09997 300269001548 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001549 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 300269001550 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 300269001551 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269001552 HTH-like domain; Region: HTH_21; pfam13276 300269001553 Integrase core domain; Region: rve; pfam00665 300269001554 Integrase core domain; Region: rve_3; pfam13683 300269001555 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001556 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 300269001557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269001558 hypothetical protein; Provisional; Region: PRK09936 300269001559 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 300269001560 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 300269001561 TPR motif; other site 300269001562 binding surface 300269001563 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 300269001564 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001565 RHS Repeat; Region: RHS_repeat; cl11982 300269001566 RHS Repeat; Region: RHS_repeat; pfam05593 300269001567 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 300269001568 RHS Repeat; Region: RHS_repeat; pfam05593 300269001569 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269001570 RHS Repeat; Region: RHS_repeat; cl11982 300269001571 RHS Repeat; Region: RHS_repeat; pfam05593 300269001572 RHS Repeat; Region: RHS_repeat; cl11982 300269001573 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269001574 PAAR motif; Region: PAAR_motif; pfam05488 300269001575 Uncharacterized conserved protein [Function unknown]; Region: COG5435 300269001576 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 300269001577 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 300269001578 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 300269001579 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 300269001580 sensor kinase CusS; Provisional; Region: PRK09835 300269001581 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 300269001582 dimerization interface [polypeptide binding]; other site 300269001583 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 300269001584 dimer interface [polypeptide binding]; other site 300269001585 phosphorylation site [posttranslational modification] 300269001586 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 300269001587 ATP binding site [chemical binding]; other site 300269001588 Mg2+ binding site [ion binding]; other site 300269001589 G-X-G motif; other site 300269001590 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 300269001591 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 300269001592 active site 300269001593 phosphorylation site [posttranslational modification] 300269001594 intermolecular recognition site; other site 300269001595 dimerization interface [polypeptide binding]; other site 300269001596 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 300269001597 DNA binding site [nucleotide binding] 300269001598 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 300269001599 periplasmic copper-binding protein; Provisional; Region: PRK09838 300269001600 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 300269001601 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269001602 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 300269001603 phenylalanine transporter; Provisional; Region: PRK10249 300269001604 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 300269001605 Mechanosensitive ion channel; Region: MS_channel; pfam00924 300269001606 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 300269001607 dimer interface [polypeptide binding]; other site 300269001608 FMN binding site [chemical binding]; other site 300269001609 hypothetical protein; Provisional; Region: PRK10250 300269001610 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 300269001611 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 300269001612 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 300269001613 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 300269001614 outer membrane receptor FepA; Provisional; Region: PRK13524 300269001615 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 300269001616 N-terminal plug; other site 300269001617 ligand-binding site [chemical binding]; other site 300269001618 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 300269001619 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 300269001620 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 300269001621 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 300269001622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 300269001623 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 300269001624 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 300269001625 acyl-activating enzyme (AAE) consensus motif; other site 300269001626 AMP binding site [chemical binding]; other site 300269001627 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 300269001628 LPS O-antigen length regulator; Provisional; Region: PRK10381 300269001629 Chain length determinant protein; Region: Wzz; pfam02706 300269001630 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 300269001631 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 300269001632 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 300269001633 Walker A/P-loop; other site 300269001634 ATP binding site [chemical binding]; other site 300269001635 Q-loop/lid; other site 300269001636 ABC transporter signature motif; other site 300269001637 Walker B; other site 300269001638 D-loop; other site 300269001639 H-loop/switch region; other site 300269001640 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 300269001641 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 300269001642 ABC-ATPase subunit interface; other site 300269001643 dimer interface [polypeptide binding]; other site 300269001644 putative PBP binding regions; other site 300269001645 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 300269001646 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 300269001647 ABC-ATPase subunit interface; other site 300269001648 dimer interface [polypeptide binding]; other site 300269001649 putative PBP binding regions; other site 300269001650 enterobactin exporter EntS; Provisional; Region: PRK10489 300269001651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269001652 putative substrate translocation pore; other site 300269001653 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 300269001654 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 300269001655 siderophore binding site; other site 300269001656 isochorismate synthase EntC; Provisional; Region: PRK15016 300269001657 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 300269001658 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 300269001659 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 300269001660 acyl-activating enzyme (AAE) consensus motif; other site 300269001661 active site 300269001662 AMP binding site [chemical binding]; other site 300269001663 substrate binding site [chemical binding]; other site 300269001664 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 300269001665 hydrophobic substrate binding pocket; other site 300269001666 Isochorismatase family; Region: Isochorismatase; pfam00857 300269001667 active site 300269001668 conserved cis-peptide bond; other site 300269001669 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 300269001670 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 300269001671 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 300269001672 putative NAD(P) binding site [chemical binding]; other site 300269001673 active site 300269001674 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 300269001675 CoenzymeA binding site [chemical binding]; other site 300269001676 subunit interaction site [polypeptide binding]; other site 300269001677 PHB binding site; other site 300269001678 carbon starvation protein A; Provisional; Region: PRK15015 300269001679 Carbon starvation protein CstA; Region: CstA; pfam02554 300269001680 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 300269001681 Uncharacterized small protein [Function unknown]; Region: COG2879 300269001682 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 300269001683 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 300269001684 putative active site [active] 300269001685 metal binding site [ion binding]; metal-binding site 300269001686 methionine aminotransferase; Validated; Region: PRK09082 300269001687 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 300269001688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269001689 homodimer interface [polypeptide binding]; other site 300269001690 catalytic residue [active] 300269001691 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 300269001692 ParB-like nuclease domain; Region: ParBc; pfam02195 300269001693 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001694 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 300269001695 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 300269001696 dimerization domain [polypeptide binding]; other site 300269001697 dimer interface [polypeptide binding]; other site 300269001698 catalytic residues [active] 300269001699 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 300269001700 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 300269001701 dimer interface [polypeptide binding]; other site 300269001702 decamer (pentamer of dimers) interface [polypeptide binding]; other site 300269001703 catalytic triad [active] 300269001704 peroxidatic and resolving cysteines [active] 300269001705 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 300269001706 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 300269001707 catalytic residue [active] 300269001708 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 300269001709 catalytic residues [active] 300269001710 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269001711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269001712 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 300269001713 Ligand Binding Site [chemical binding]; other site 300269001714 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 300269001715 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 300269001716 NAD binding site [chemical binding]; other site 300269001717 catalytic Zn binding site [ion binding]; other site 300269001718 structural Zn binding site [ion binding]; other site 300269001719 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 300269001720 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 300269001721 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 300269001722 B1 nucleotide binding pocket [chemical binding]; other site 300269001723 B2 nucleotide binding pocket [chemical binding]; other site 300269001724 CAS motifs; other site 300269001725 active site 300269001726 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 300269001727 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 300269001728 transmembrane helices; other site 300269001729 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 300269001730 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 300269001731 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 300269001732 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 300269001733 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 300269001734 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269001735 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 300269001736 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 300269001737 putative active site [active] 300269001738 heme pocket [chemical binding]; other site 300269001739 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 300269001740 ATP binding site [chemical binding]; other site 300269001741 Mg2+ binding site [ion binding]; other site 300269001742 G-X-G motif; other site 300269001743 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 300269001744 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 300269001745 active site 300269001746 phosphorylation site [posttranslational modification] 300269001747 intermolecular recognition site; other site 300269001748 dimerization interface [polypeptide binding]; other site 300269001749 Transcriptional regulator; Region: CitT; pfam12431 300269001750 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 300269001751 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 300269001752 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001753 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 300269001754 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 300269001755 DNA-binding site [nucleotide binding]; DNA binding site 300269001756 RNA-binding motif; other site 300269001757 chromosome condensation membrane protein; Provisional; Region: PRK14196 300269001758 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 300269001759 Predicted amidohydrolase [General function prediction only]; Region: COG0388 300269001760 active site 300269001761 catalytic triad [active] 300269001762 dimer interface [polypeptide binding]; other site 300269001763 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 300269001764 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269001765 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269001766 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269001767 lipoyl synthase; Provisional; Region: PRK05481 300269001768 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 300269001769 FeS/SAM binding site; other site 300269001770 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 300269001771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269001772 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 300269001773 substrate binding pocket [chemical binding]; other site 300269001774 dimerization interface [polypeptide binding]; other site 300269001775 lipoate-protein ligase B; Provisional; Region: PRK14342 300269001776 hypothetical protein; Provisional; Region: PRK04998 300269001777 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 300269001778 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 300269001779 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 300269001780 rare lipoprotein A; Provisional; Region: PRK10672 300269001781 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 300269001782 Sporulation related domain; Region: SPOR; pfam05036 300269001783 cell wall shape-determining protein; Provisional; Region: PRK10794 300269001784 penicillin-binding protein 2; Provisional; Region: PRK10795 300269001785 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 300269001786 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 300269001787 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 300269001788 Oligomerisation domain; Region: Oligomerisation; cl00519 300269001789 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 300269001790 catalytic core [active] 300269001791 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 300269001792 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 300269001793 active site 300269001794 (T/H)XGH motif; other site 300269001795 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 300269001796 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 300269001797 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 300269001798 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 300269001799 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 300269001800 HIGH motif; other site 300269001801 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 300269001802 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 300269001803 active site 300269001804 KMSKS motif; other site 300269001805 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 300269001806 tRNA binding surface [nucleotide binding]; other site 300269001807 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 300269001808 hypothetical protein; Provisional; Region: PRK11032 300269001809 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 300269001810 Sel1-like repeats; Region: SEL1; smart00671 300269001811 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 300269001812 Sel1-like repeats; Region: SEL1; smart00671 300269001813 Sel1-like repeats; Region: SEL1; smart00671 300269001814 Sel1-like repeats; Region: SEL1; smart00671 300269001815 Sel1-like repeats; Region: SEL1; smart00671 300269001816 Sel1-like repeats; Region: SEL1; smart00671 300269001817 Sel1-like repeats; Region: SEL1; smart00671 300269001818 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 300269001819 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 300269001820 HSP70 interaction site [polypeptide binding]; other site 300269001821 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 300269001822 Sel1-like repeats; Region: SEL1; smart00671 300269001823 Sel1-like repeats; Region: SEL1; smart00671 300269001824 Sel1-like repeats; Region: SEL1; smart00671 300269001825 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 300269001826 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 300269001827 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 300269001828 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 300269001829 nucleotide binding site [chemical binding]; other site 300269001830 putative NEF/HSP70 interaction site [polypeptide binding]; other site 300269001831 SBD interface [polypeptide binding]; other site 300269001832 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 300269001833 active site 300269001834 tetramer interface [polypeptide binding]; other site 300269001835 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 300269001836 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 300269001837 Walker A/P-loop; other site 300269001838 ATP binding site [chemical binding]; other site 300269001839 Q-loop/lid; other site 300269001840 ABC transporter signature motif; other site 300269001841 Walker B; other site 300269001842 D-loop; other site 300269001843 H-loop/switch region; other site 300269001844 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269001845 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 300269001846 dimer interface [polypeptide binding]; other site 300269001847 conserved gate region; other site 300269001848 putative PBP binding loops; other site 300269001849 ABC-ATPase subunit interface; other site 300269001850 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269001851 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 300269001852 dimer interface [polypeptide binding]; other site 300269001853 conserved gate region; other site 300269001854 putative PBP binding loops; other site 300269001855 ABC-ATPase subunit interface; other site 300269001856 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 300269001857 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 300269001858 substrate binding pocket [chemical binding]; other site 300269001859 membrane-bound complex binding site; other site 300269001860 hinge residues; other site 300269001861 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 300269001862 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 300269001863 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 300269001864 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 300269001865 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 300269001866 putative active site [active] 300269001867 catalytic triad [active] 300269001868 putative dimer interface [polypeptide binding]; other site 300269001869 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 300269001870 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 300269001871 Transporter associated domain; Region: CorC_HlyC; smart01091 300269001872 metal-binding heat shock protein; Provisional; Region: PRK00016 300269001873 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 300269001874 PhoH-like protein; Region: PhoH; pfam02562 300269001875 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 300269001876 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 300269001877 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 300269001878 FeS/SAM binding site; other site 300269001879 TRAM domain; Region: TRAM; pfam01938 300269001880 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 300269001881 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 300269001882 asparagine synthetase B; Provisional; Region: asnB; PRK09431 300269001883 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 300269001884 active site 300269001885 dimer interface [polypeptide binding]; other site 300269001886 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 300269001887 Ligand Binding Site [chemical binding]; other site 300269001888 Molecular Tunnel; other site 300269001889 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001890 UMP phosphatase; Provisional; Region: PRK10444 300269001891 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 300269001892 active site 300269001893 motif I; other site 300269001894 motif II; other site 300269001895 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 300269001896 MarR family; Region: MarR; pfam01047 300269001897 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 300269001898 ROK family; Region: ROK; pfam00480 300269001899 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 300269001900 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 300269001901 active site 300269001902 dimer interface [polypeptide binding]; other site 300269001903 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 300269001904 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 300269001905 active site 300269001906 trimer interface [polypeptide binding]; other site 300269001907 allosteric site; other site 300269001908 active site lid [active] 300269001909 hexamer (dimer of trimers) interface [polypeptide binding]; other site 300269001910 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 300269001911 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 300269001912 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 300269001913 active site turn [active] 300269001914 phosphorylation site [posttranslational modification] 300269001915 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 300269001916 HPr interaction site; other site 300269001917 glycerol kinase (GK) interaction site [polypeptide binding]; other site 300269001918 active site 300269001919 phosphorylation site [posttranslational modification] 300269001920 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 300269001921 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 300269001922 active site 300269001923 HIGH motif; other site 300269001924 nucleotide binding site [chemical binding]; other site 300269001925 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 300269001926 KMSKS motif; other site 300269001927 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 300269001928 outer membrane porin, OprD family; Region: OprD; pfam03573 300269001929 YbfN-like lipoprotein; Region: YbfN; pfam13982 300269001930 ferric uptake regulator; Provisional; Region: fur; PRK09462 300269001931 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 300269001932 metal binding site 2 [ion binding]; metal-binding site 300269001933 putative DNA binding helix; other site 300269001934 metal binding site 1 [ion binding]; metal-binding site 300269001935 dimer interface [polypeptide binding]; other site 300269001936 structural Zn2+ binding site [ion binding]; other site 300269001937 flavodoxin FldA; Validated; Region: PRK09267 300269001938 LexA regulated protein; Provisional; Region: PRK11675 300269001939 acyl-CoA esterase; Provisional; Region: PRK10673 300269001940 PGAP1-like protein; Region: PGAP1; pfam07819 300269001941 replication initiation regulator SeqA; Provisional; Region: PRK11187 300269001942 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 300269001943 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 300269001944 active site 300269001945 substrate binding site [chemical binding]; other site 300269001946 metal binding site [ion binding]; metal-binding site 300269001947 putrescine transporter; Provisional; Region: potE; PRK10655 300269001948 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 300269001949 ornithine decarboxylase; Provisional; Region: PRK13578 300269001950 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 300269001951 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 300269001952 homodimer interface [polypeptide binding]; other site 300269001953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269001954 catalytic residue [active] 300269001955 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 300269001956 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 300269001957 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 300269001958 active site 300269001959 phosphorylation site [posttranslational modification] 300269001960 intermolecular recognition site; other site 300269001961 dimerization interface [polypeptide binding]; other site 300269001962 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 300269001963 DNA binding site [nucleotide binding] 300269001964 sensor protein KdpD; Provisional; Region: PRK10490 300269001965 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 300269001966 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 300269001967 Ligand Binding Site [chemical binding]; other site 300269001968 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 300269001969 GAF domain; Region: GAF_3; pfam13492 300269001970 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 300269001971 dimer interface [polypeptide binding]; other site 300269001972 phosphorylation site [posttranslational modification] 300269001973 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 300269001974 ATP binding site [chemical binding]; other site 300269001975 Mg2+ binding site [ion binding]; other site 300269001976 G-X-G motif; other site 300269001977 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 300269001978 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 300269001979 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 300269001980 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 300269001981 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 300269001982 PAAR motif; Region: PAAR_motif; cl15808 300269001983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269001984 Integrase core domain; Region: rve; pfam00665 300269001985 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 300269001986 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 300269001987 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 300269001988 Walker A motif; other site 300269001989 ATP binding site [chemical binding]; other site 300269001990 RHS Repeat; Region: RHS_repeat; pfam05593 300269001991 RHS Repeat; Region: RHS_repeat; cl11982 300269001992 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269001993 RHS Repeat; Region: RHS_repeat; pfam05593 300269001994 RHS Repeat; Region: RHS_repeat; pfam05593 300269001995 RHS protein; Region: RHS; pfam03527 300269001996 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269001997 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269001998 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 300269001999 DNA photolyase; Region: DNA_photolyase; pfam00875 300269002000 hypothetical protein; Provisional; Region: PRK10167 300269002001 Uncharacterized conserved protein [Function unknown]; Region: COG3272 300269002002 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269002003 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 300269002004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269002005 putative substrate translocation pore; other site 300269002006 POT family; Region: PTR2; pfam00854 300269002007 Uncharacterized conserved protein [Function unknown]; Region: COG0327 300269002008 metal-binding protein; Provisional; Region: PRK10799 300269002009 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 300269002010 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 300269002011 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 300269002012 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 300269002013 putative active site [active] 300269002014 endonuclease VIII; Provisional; Region: PRK10445 300269002015 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 300269002016 DNA binding site [nucleotide binding] 300269002017 catalytic residue [active] 300269002018 putative catalytic residues [active] 300269002019 H2TH interface [polypeptide binding]; other site 300269002020 intercalation triad [nucleotide binding]; other site 300269002021 substrate specificity determining residue; other site 300269002022 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 300269002023 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 300269002024 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 300269002025 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 300269002026 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 300269002027 Fimbrial protein; Region: Fimbrial; pfam00419 300269002028 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 300269002029 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269002030 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269002031 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 300269002032 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 300269002033 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 300269002034 dimer interface [polypeptide binding]; other site 300269002035 active site 300269002036 citrylCoA binding site [chemical binding]; other site 300269002037 NADH binding [chemical binding]; other site 300269002038 cationic pore residues; other site 300269002039 oxalacetate/citrate binding site [chemical binding]; other site 300269002040 coenzyme A binding site [chemical binding]; other site 300269002041 catalytic triad [active] 300269002042 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 300269002043 Iron-sulfur protein interface; other site 300269002044 proximal quinone binding site [chemical binding]; other site 300269002045 SdhD (CybS) interface [polypeptide binding]; other site 300269002046 proximal heme binding site [chemical binding]; other site 300269002047 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 300269002048 SdhC subunit interface [polypeptide binding]; other site 300269002049 proximal heme binding site [chemical binding]; other site 300269002050 cardiolipin binding site; other site 300269002051 Iron-sulfur protein interface; other site 300269002052 proximal quinone binding site [chemical binding]; other site 300269002053 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 300269002054 L-aspartate oxidase; Provisional; Region: PRK06175 300269002055 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 300269002056 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 300269002057 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 300269002058 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 300269002059 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 300269002060 TPP-binding site [chemical binding]; other site 300269002061 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 300269002062 dimer interface [polypeptide binding]; other site 300269002063 PYR/PP interface [polypeptide binding]; other site 300269002064 TPP binding site [chemical binding]; other site 300269002065 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 300269002066 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 300269002067 E3 interaction surface; other site 300269002068 lipoyl attachment site [posttranslational modification]; other site 300269002069 e3 binding domain; Region: E3_binding; pfam02817 300269002070 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 300269002071 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 300269002072 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 300269002073 CoA-ligase; Region: Ligase_CoA; pfam00549 300269002074 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 300269002075 CoA binding domain; Region: CoA_binding; smart00881 300269002076 CoA-ligase; Region: Ligase_CoA; pfam00549 300269002077 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 300269002078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269002079 DNA-binding site [nucleotide binding]; DNA binding site 300269002080 UTRA domain; Region: UTRA; pfam07702 300269002081 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 300269002082 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 300269002083 active site 300269002084 phosphorylation site [posttranslational modification] 300269002085 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 300269002086 active site 300269002087 P-loop; other site 300269002088 phosphorylation site [posttranslational modification] 300269002089 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 300269002090 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 300269002091 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 300269002092 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 300269002093 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 300269002094 hypothetical protein; Provisional; Region: PRK10588 300269002095 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 300269002096 active site 300269002097 colicin uptake protein TolQ; Provisional; Region: PRK10801 300269002098 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 300269002099 colicin uptake protein TolR; Provisional; Region: PRK11024 300269002100 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 300269002101 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 300269002102 TolA C-terminal; Region: TolA; pfam06519 300269002103 translocation protein TolB; Provisional; Region: tolB; PRK03629 300269002104 TolB amino-terminal domain; Region: TolB_N; pfam04052 300269002105 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 300269002106 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 300269002107 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 300269002108 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 300269002109 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269002110 ligand binding site [chemical binding]; other site 300269002111 tol-pal system protein YbgF; Provisional; Region: PRK10803 300269002112 Tetratricopeptide repeat; Region: TPR_6; pfam13174 300269002113 Tetratricopeptide repeat; Region: TPR_6; pfam13174 300269002114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269002115 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269002116 Integrase core domain; Region: rve; pfam00665 300269002117 Integrase core domain; Region: rve_3; cl15866 300269002118 transposase/IS protein; Provisional; Region: PRK09183 300269002119 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 300269002120 Walker A motif; other site 300269002121 ATP binding site [chemical binding]; other site 300269002122 Walker B motif; other site 300269002123 arginine finger; other site 300269002124 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 300269002125 zinc transporter ZitB; Provisional; Region: PRK03557 300269002126 YbgS-like protein; Region: YbgS; pfam13985 300269002127 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 300269002128 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 300269002129 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 300269002130 catalytic core [active] 300269002131 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 300269002132 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 300269002133 active site 300269002134 catalytic residues [active] 300269002135 galactokinase; Provisional; Region: PRK05101 300269002136 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 300269002137 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 300269002138 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 300269002139 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 300269002140 dimer interface [polypeptide binding]; other site 300269002141 active site 300269002142 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 300269002143 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 300269002144 NAD binding site [chemical binding]; other site 300269002145 homodimer interface [polypeptide binding]; other site 300269002146 active site 300269002147 substrate binding site [chemical binding]; other site 300269002148 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 300269002149 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 300269002150 Walker A/P-loop; other site 300269002151 ATP binding site [chemical binding]; other site 300269002152 Q-loop/lid; other site 300269002153 ABC transporter signature motif; other site 300269002154 Walker B; other site 300269002155 D-loop; other site 300269002156 H-loop/switch region; other site 300269002157 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002158 Walker A/P-loop; other site 300269002159 ATP binding site [chemical binding]; other site 300269002160 Q-loop/lid; other site 300269002161 ABC transporter signature motif; other site 300269002162 Walker B; other site 300269002163 D-loop; other site 300269002164 H-loop/switch region; other site 300269002165 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 300269002166 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 300269002167 molybdenum-pterin binding domain; Region: Mop; TIGR00638 300269002168 TOBE domain; Region: TOBE; pfam03459 300269002169 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 300269002170 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 300269002171 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 300269002172 substrate binding pocket [chemical binding]; other site 300269002173 membrane-bound complex binding site; other site 300269002174 hinge residues; other site 300269002175 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 300269002176 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 300269002177 putative PBP binding loops; other site 300269002178 ABC-ATPase subunit interface; other site 300269002179 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 300269002180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002181 Walker A/P-loop; other site 300269002182 ATP binding site [chemical binding]; other site 300269002183 Q-loop/lid; other site 300269002184 ABC transporter signature motif; other site 300269002185 Walker B; other site 300269002186 D-loop; other site 300269002187 H-loop/switch region; other site 300269002188 molybdenum-pterin binding domain; Region: Mop; TIGR00638 300269002189 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002190 Transposase; Region: HTH_Tnp_1; pfam01527 300269002191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269002192 Integrase core domain; Region: rve; pfam00665 300269002193 Integrase core domain; Region: rve_3; pfam13683 300269002194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 300269002195 putative replication protein; Provisional; Region: PRK12377 300269002196 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 300269002197 Walker A motif; other site 300269002198 ATP binding site [chemical binding]; other site 300269002199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002200 Transposase; Region: HTH_Tnp_1; pfam01527 300269002201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269002202 Integrase core domain; Region: rve; pfam00665 300269002203 Integrase core domain; Region: rve_3; pfam13683 300269002204 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 300269002205 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 300269002206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002207 Transposase; Region: HTH_Tnp_1; pfam01527 300269002208 putative transposase OrfB; Reviewed; Region: PHA02517 300269002209 HTH-like domain; Region: HTH_21; pfam13276 300269002210 Integrase core domain; Region: rve; pfam00665 300269002211 Integrase core domain; Region: rve_3; pfam13683 300269002212 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269002213 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269002214 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269002215 HTH-like domain; Region: HTH_21; pfam13276 300269002216 Integrase core domain; Region: rve; pfam00665 300269002217 Integrase core domain; Region: rve_3; pfam13683 300269002218 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 300269002219 catalytic residues [active] 300269002220 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 300269002221 Phage terminase large subunit; Region: Terminase_3; cl12054 300269002222 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 300269002223 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 300269002224 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 300269002225 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002226 6-phosphogluconolactonase; Provisional; Region: PRK11028 300269002227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269002228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269002229 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 300269002230 putative dimerization interface [polypeptide binding]; other site 300269002231 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002232 putative hydratase; Provisional; Region: PRK11413 300269002233 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 300269002234 substrate binding site [chemical binding]; other site 300269002235 ligand binding site [chemical binding]; other site 300269002236 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 300269002237 substrate binding site [chemical binding]; other site 300269002238 acyl-CoA thioesterase; Provisional; Region: PRK10531 300269002239 putative pectinesterase; Region: PLN02432; cl01911 300269002240 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 300269002241 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 300269002242 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 300269002243 dimer interface [polypeptide binding]; other site 300269002244 active site 300269002245 Int/Topo IB signature motif; other site 300269002246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269002247 Integrase core domain; Region: rve; pfam00665 300269002248 Integrase core domain; Region: rve_3; pfam13683 300269002249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002250 Transposase; Region: HTH_Tnp_1; pfam01527 300269002251 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 300269002252 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269002253 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269002254 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 300269002255 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 300269002256 substrate binding site [chemical binding]; other site 300269002257 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 300269002258 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 300269002259 inhibitor-cofactor binding pocket; inhibition site 300269002260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269002261 catalytic residue [active] 300269002262 biotin synthase; Provisional; Region: PRK15108 300269002263 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 300269002264 FeS/SAM binding site; other site 300269002265 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 300269002266 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 300269002267 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 300269002268 substrate-cofactor binding pocket; other site 300269002269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269002270 catalytic residue [active] 300269002271 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 300269002272 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 300269002273 S-adenosylmethionine binding site [chemical binding]; other site 300269002274 AAA domain; Region: AAA_26; pfam13500 300269002275 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 300269002276 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 300269002277 ADP binding site [chemical binding]; other site 300269002278 excinuclease ABC subunit B; Provisional; Region: PRK05298 300269002279 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 300269002280 ATP binding site [chemical binding]; other site 300269002281 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 300269002282 nucleotide binding region [chemical binding]; other site 300269002283 ATP-binding site [chemical binding]; other site 300269002284 Ultra-violet resistance protein B; Region: UvrB; pfam12344 300269002285 UvrB/uvrC motif; Region: UVR; pfam02151 300269002286 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 300269002287 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 300269002288 putative substrate binding pocket [chemical binding]; other site 300269002289 dimer interface [polypeptide binding]; other site 300269002290 phosphate binding site [ion binding]; other site 300269002291 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 300269002292 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 300269002293 FeS/SAM binding site; other site 300269002294 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 300269002295 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 300269002296 MPT binding site; other site 300269002297 trimer interface [polypeptide binding]; other site 300269002298 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 300269002299 trimer interface [polypeptide binding]; other site 300269002300 dimer interface [polypeptide binding]; other site 300269002301 putative active site [active] 300269002302 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 300269002303 MoaE interaction surface [polypeptide binding]; other site 300269002304 MoeB interaction surface [polypeptide binding]; other site 300269002305 thiocarboxylated glycine; other site 300269002306 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 300269002307 MoaE homodimer interface [polypeptide binding]; other site 300269002308 MoaD interaction [polypeptide binding]; other site 300269002309 active site residues [active] 300269002310 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 300269002311 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 300269002312 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 300269002313 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 300269002314 cardiolipin synthase 2; Provisional; Region: PRK11263 300269002315 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 300269002316 putative active site [active] 300269002317 catalytic site [active] 300269002318 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 300269002319 putative active site [active] 300269002320 catalytic site [active] 300269002321 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 300269002322 putative catalytic site [active] 300269002323 putative metal binding site [ion binding]; other site 300269002324 putative phosphate binding site [ion binding]; other site 300269002325 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 300269002326 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 300269002327 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 300269002328 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 300269002329 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 300269002330 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 300269002331 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 300269002332 Walker A/P-loop; other site 300269002333 ATP binding site [chemical binding]; other site 300269002334 Q-loop/lid; other site 300269002335 ABC transporter signature motif; other site 300269002336 Walker B; other site 300269002337 D-loop; other site 300269002338 H-loop/switch region; other site 300269002339 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 300269002340 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 300269002341 Walker A/P-loop; other site 300269002342 ATP binding site [chemical binding]; other site 300269002343 Q-loop/lid; other site 300269002344 ABC transporter signature motif; other site 300269002345 Walker B; other site 300269002346 D-loop; other site 300269002347 H-loop/switch region; other site 300269002348 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 300269002349 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269002350 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269002351 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 300269002352 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 300269002353 helicase 45; Provisional; Region: PTZ00424 300269002354 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 300269002355 ATP binding site [chemical binding]; other site 300269002356 Mg++ binding site [ion binding]; other site 300269002357 motif III; other site 300269002358 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 300269002359 nucleotide binding region [chemical binding]; other site 300269002360 ATP-binding site [chemical binding]; other site 300269002361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 300269002362 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 300269002363 DEAD_2; Region: DEAD_2; pfam06733 300269002364 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 300269002365 glycosyl transferase family protein; Provisional; Region: PRK08136 300269002366 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 300269002367 putative dehydrogenase; Provisional; Region: PRK10098 300269002368 hypothetical protein; Provisional; Region: PRK10259 300269002369 hypothetical protein; Provisional; Region: PRK11019 300269002370 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 300269002371 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269002372 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269002373 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269002374 hypothetical protein; Provisional; Region: PRK10259 300269002375 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 300269002376 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 300269002377 putative mechanosensitive channel protein; Provisional; Region: PRK11465 300269002378 Mechanosensitive ion channel; Region: MS_channel; pfam00924 300269002379 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 300269002380 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 300269002381 Walker A/P-loop; other site 300269002382 ATP binding site [chemical binding]; other site 300269002383 Q-loop/lid; other site 300269002384 ABC transporter signature motif; other site 300269002385 Walker B; other site 300269002386 D-loop; other site 300269002387 H-loop/switch region; other site 300269002388 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269002389 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 300269002390 dimer interface [polypeptide binding]; other site 300269002391 conserved gate region; other site 300269002392 putative PBP binding loops; other site 300269002393 ABC-ATPase subunit interface; other site 300269002394 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 300269002395 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 300269002396 substrate binding pocket [chemical binding]; other site 300269002397 membrane-bound complex binding site; other site 300269002398 hinge residues; other site 300269002399 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 300269002400 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 300269002401 dimerization interface [polypeptide binding]; other site 300269002402 DPS ferroxidase diiron center [ion binding]; other site 300269002403 ion pore; other site 300269002404 threonine and homoserine efflux system; Provisional; Region: PRK10532 300269002405 EamA-like transporter family; Region: EamA; pfam00892 300269002406 outer membrane protein X; Provisional; Region: ompX; PRK09408 300269002407 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 300269002408 Sulfatase; Region: Sulfatase; pfam00884 300269002409 manganese transport regulator MntR; Provisional; Region: PRK11050 300269002410 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 300269002411 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 300269002412 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 300269002413 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 300269002414 transmembrane helices; other site 300269002415 L,D-transpeptidase; Provisional; Region: PRK10260 300269002416 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269002417 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 300269002418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002419 Walker A/P-loop; other site 300269002420 ATP binding site [chemical binding]; other site 300269002421 Q-loop/lid; other site 300269002422 ABC transporter signature motif; other site 300269002423 Walker B; other site 300269002424 D-loop; other site 300269002425 H-loop/switch region; other site 300269002426 ABC transporter; Region: ABC_tran_2; pfam12848 300269002427 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269002428 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 300269002429 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 300269002430 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 300269002431 putative active site [active] 300269002432 putative catalytic site [active] 300269002433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269002434 D-galactonate transporter; Region: 2A0114; TIGR00893 300269002435 putative substrate translocation pore; other site 300269002436 Transcriptional regulators [Transcription]; Region: PurR; COG1609 300269002437 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269002438 DNA binding site [nucleotide binding] 300269002439 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 300269002440 ligand binding site [chemical binding]; other site 300269002441 dimerization interface [polypeptide binding]; other site 300269002442 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 300269002443 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 300269002444 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 300269002445 active site 300269002446 motif I; other site 300269002447 motif II; other site 300269002448 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 300269002449 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 300269002450 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 300269002451 dimer interface [polypeptide binding]; other site 300269002452 active site 300269002453 glycine loop; other site 300269002454 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 300269002455 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 300269002456 active site 300269002457 intersubunit interactions; other site 300269002458 catalytic residue [active] 300269002459 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 300269002460 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 300269002461 ATP binding site [chemical binding]; other site 300269002462 substrate interface [chemical binding]; other site 300269002463 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 300269002464 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 300269002465 dimer interface [polypeptide binding]; other site 300269002466 putative functional site; other site 300269002467 putative MPT binding site; other site 300269002468 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 300269002469 catalytic nucleophile [active] 300269002470 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 300269002471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269002472 Walker A/P-loop; other site 300269002473 ATP binding site [chemical binding]; other site 300269002474 Q-loop/lid; other site 300269002475 ABC transporter signature motif; other site 300269002476 Walker B; other site 300269002477 D-loop; other site 300269002478 H-loop/switch region; other site 300269002479 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269002480 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269002481 Walker A/P-loop; other site 300269002482 ATP binding site [chemical binding]; other site 300269002483 Q-loop/lid; other site 300269002484 ABC transporter signature motif; other site 300269002485 Walker B; other site 300269002486 D-loop; other site 300269002487 H-loop/switch region; other site 300269002488 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 300269002489 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 300269002490 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 300269002491 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 300269002492 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 300269002493 dimer interface [polypeptide binding]; other site 300269002494 conserved gate region; other site 300269002495 putative PBP binding loops; other site 300269002496 ABC-ATPase subunit interface; other site 300269002497 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 300269002498 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 300269002499 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 300269002500 dimer interface [polypeptide binding]; other site 300269002501 conserved gate region; other site 300269002502 putative PBP binding loops; other site 300269002503 ABC-ATPase subunit interface; other site 300269002504 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002505 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 300269002506 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 300269002507 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 300269002508 FeS/SAM binding site; other site 300269002509 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 300269002510 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 300269002511 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 300269002512 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 300269002513 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 300269002514 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 300269002515 N-terminal domain interface [polypeptide binding]; other site 300269002516 dimer interface [polypeptide binding]; other site 300269002517 substrate binding pocket (H-site) [chemical binding]; other site 300269002518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002519 Transposase; Region: HTH_Tnp_1; pfam01527 300269002520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269002521 Integrase core domain; Region: rve; pfam00665 300269002522 Integrase core domain; Region: rve_3; pfam13683 300269002523 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 300269002524 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269002525 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269002526 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 300269002527 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 300269002528 active site 300269002529 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 300269002530 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; cl17915 300269002531 active site 300269002532 motif I; other site 300269002533 motif II; other site 300269002534 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 300269002535 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 300269002536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269002537 putative substrate translocation pore; other site 300269002538 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269002539 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 300269002540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269002541 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 300269002542 putative transporter; Provisional; Region: PRK04972 300269002543 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 300269002544 TrkA-C domain; Region: TrkA_C; pfam02080 300269002545 TrkA-C domain; Region: TrkA_C; pfam02080 300269002546 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 300269002547 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 300269002548 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 300269002549 GSH binding site [chemical binding]; other site 300269002550 catalytic residues [active] 300269002551 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 300269002552 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 300269002553 dimer interface [polypeptide binding]; other site 300269002554 FMN binding site [chemical binding]; other site 300269002555 NADPH bind site [chemical binding]; other site 300269002556 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 300269002557 RimK-like ATP-grasp domain; Region: RimK; pfam08443 300269002558 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 300269002559 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 300269002560 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 300269002561 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 300269002562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002563 Walker A/P-loop; other site 300269002564 ATP binding site [chemical binding]; other site 300269002565 Q-loop/lid; other site 300269002566 ABC transporter signature motif; other site 300269002567 Walker B; other site 300269002568 D-loop; other site 300269002569 H-loop/switch region; other site 300269002570 TOBE domain; Region: TOBE_2; pfam08402 300269002571 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 300269002572 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 300269002573 dimer interface [polypeptide binding]; other site 300269002574 conserved gate region; other site 300269002575 putative PBP binding loops; other site 300269002576 ABC-ATPase subunit interface; other site 300269002577 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 300269002578 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 300269002579 putative PBP binding loops; other site 300269002580 dimer interface [polypeptide binding]; other site 300269002581 ABC-ATPase subunit interface; other site 300269002582 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 300269002583 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 300269002584 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 300269002585 S-adenosylmethionine binding site [chemical binding]; other site 300269002586 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 300269002587 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 300269002588 substrate binding pocket [chemical binding]; other site 300269002589 membrane-bound complex binding site; other site 300269002590 hinge residues; other site 300269002591 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 300269002592 dimer interface [polypeptide binding]; other site 300269002593 conserved gate region; other site 300269002594 putative PBP binding loops; other site 300269002595 ABC-ATPase subunit interface; other site 300269002596 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269002597 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 300269002598 dimer interface [polypeptide binding]; other site 300269002599 conserved gate region; other site 300269002600 putative PBP binding loops; other site 300269002601 ABC-ATPase subunit interface; other site 300269002602 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 300269002603 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 300269002604 substrate binding pocket [chemical binding]; other site 300269002605 membrane-bound complex binding site; other site 300269002606 hinge residues; other site 300269002607 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 300269002608 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002609 Walker A/P-loop; other site 300269002610 ATP binding site [chemical binding]; other site 300269002611 Q-loop/lid; other site 300269002612 ABC transporter signature motif; other site 300269002613 Walker B; other site 300269002614 D-loop; other site 300269002615 H-loop/switch region; other site 300269002616 putative lipoprotein; Provisional; Region: PRK10533 300269002617 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 300269002618 hypothetical protein; Provisional; Region: PRK02877 300269002619 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 300269002620 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 300269002621 amidase catalytic site [active] 300269002622 Zn binding residues [ion binding]; other site 300269002623 substrate binding site [chemical binding]; other site 300269002624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 300269002625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 300269002626 NAD(P) binding site [chemical binding]; other site 300269002627 active site 300269002628 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 300269002629 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 300269002630 putative NAD(P) binding site [chemical binding]; other site 300269002631 putative active site [active] 300269002632 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 300269002633 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 300269002634 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 300269002635 tetramer interface [polypeptide binding]; other site 300269002636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269002637 catalytic residue [active] 300269002638 pyruvate dehydrogenase; Provisional; Region: PRK09124 300269002639 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 300269002640 PYR/PP interface [polypeptide binding]; other site 300269002641 dimer interface [polypeptide binding]; other site 300269002642 tetramer interface [polypeptide binding]; other site 300269002643 TPP binding site [chemical binding]; other site 300269002644 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 300269002645 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 300269002646 TPP-binding site [chemical binding]; other site 300269002647 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 300269002648 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 300269002649 FAD binding pocket [chemical binding]; other site 300269002650 FAD binding motif [chemical binding]; other site 300269002651 phosphate binding motif [ion binding]; other site 300269002652 beta-alpha-beta structure motif; other site 300269002653 NAD binding pocket [chemical binding]; other site 300269002654 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 300269002655 catalytic loop [active] 300269002656 iron binding site [ion binding]; other site 300269002657 hybrid cluster protein; Provisional; Region: PRK05290 300269002658 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269002659 ACS interaction site; other site 300269002660 CODH interaction site; other site 300269002661 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 300269002662 hybrid metal cluster; other site 300269002663 Predicted membrane protein [Function unknown]; Region: COG2431 300269002664 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002665 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 300269002666 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 300269002667 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 300269002668 putative active site [active] 300269002669 putative metal-binding site [ion binding]; other site 300269002670 Protein of unknown function (DUF535); Region: DUF535; pfam04393 300269002671 macrolide transporter subunit MacA; Provisional; Region: PRK11578 300269002672 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269002673 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269002674 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 300269002675 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 300269002676 Walker A/P-loop; other site 300269002677 ATP binding site [chemical binding]; other site 300269002678 Q-loop/lid; other site 300269002679 ABC transporter signature motif; other site 300269002680 Walker B; other site 300269002681 D-loop; other site 300269002682 H-loop/switch region; other site 300269002683 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 300269002684 FtsX-like permease family; Region: FtsX; pfam02687 300269002685 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 300269002686 DNA-binding site [nucleotide binding]; DNA binding site 300269002687 RNA-binding motif; other site 300269002688 integrase; Provisional; Region: PRK09692 300269002689 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 300269002690 active site 300269002691 Int/Topo IB signature motif; other site 300269002692 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002693 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 300269002694 D5 N terminal like; Region: D5_N; smart00885 300269002695 Phage associated DNA primase [General function prediction only]; Region: COG3378 300269002696 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269002697 Transposase; Region: HTH_Tnp_1; pfam01527 300269002698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269002699 Integrase core domain; Region: rve; pfam00665 300269002700 Integrase core domain; Region: rve_3; pfam13683 300269002701 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 300269002702 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 300269002703 ssDNA binding site [nucleotide binding]; other site 300269002704 dimer interface [polypeptide binding]; other site 300269002705 tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269002706 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 300269002707 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 300269002708 oligomer interface [polypeptide binding]; other site 300269002709 active site residues [active] 300269002710 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 300269002711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269002712 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269002713 Integrase core domain; Region: rve; pfam00665 300269002714 Integrase core domain; Region: rve_3; cl15866 300269002715 transposase/IS protein; Provisional; Region: PRK09183 300269002716 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 300269002717 Walker A motif; other site 300269002718 ATP binding site [chemical binding]; other site 300269002719 Walker B motif; other site 300269002720 arginine finger; other site 300269002721 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 300269002722 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 300269002723 Clp amino terminal domain; Region: Clp_N; pfam02861 300269002724 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 300269002725 Walker A motif; other site 300269002726 ATP binding site [chemical binding]; other site 300269002727 Walker B motif; other site 300269002728 arginine finger; other site 300269002729 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 300269002730 Walker A motif; other site 300269002731 ATP binding site [chemical binding]; other site 300269002732 Walker B motif; other site 300269002733 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 300269002734 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 300269002735 rRNA binding site [nucleotide binding]; other site 300269002736 predicted 30S ribosome binding site; other site 300269002737 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 300269002738 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 300269002739 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 300269002740 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 300269002741 Walker A/P-loop; other site 300269002742 ATP binding site [chemical binding]; other site 300269002743 Q-loop/lid; other site 300269002744 ABC transporter signature motif; other site 300269002745 Walker B; other site 300269002746 D-loop; other site 300269002747 H-loop/switch region; other site 300269002748 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 300269002749 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 300269002750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002751 Walker A/P-loop; other site 300269002752 ATP binding site [chemical binding]; other site 300269002753 Q-loop/lid; other site 300269002754 ABC transporter signature motif; other site 300269002755 Walker B; other site 300269002756 D-loop; other site 300269002757 H-loop/switch region; other site 300269002758 thioredoxin reductase; Provisional; Region: PRK10262 300269002759 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269002760 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269002761 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 300269002762 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 300269002763 putative DNA binding site [nucleotide binding]; other site 300269002764 putative Zn2+ binding site [ion binding]; other site 300269002765 AsnC family; Region: AsnC_trans_reg; pfam01037 300269002766 DNA translocase FtsK; Provisional; Region: PRK10263 300269002767 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 300269002768 DNA translocase FtsK; Provisional; Region: PRK10263 300269002769 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 300269002770 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 300269002771 periplasmic chaperone LolA; Region: lolA; TIGR00547 300269002772 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 300269002773 recombination factor protein RarA; Reviewed; Region: PRK13342 300269002774 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 300269002775 Walker A motif; other site 300269002776 ATP binding site [chemical binding]; other site 300269002777 Walker B motif; other site 300269002778 arginine finger; other site 300269002779 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 300269002780 seryl-tRNA synthetase; Provisional; Region: PRK05431 300269002781 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 300269002782 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 300269002783 dimer interface [polypeptide binding]; other site 300269002784 active site 300269002785 motif 1; other site 300269002786 motif 2; other site 300269002787 motif 3; other site 300269002788 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 300269002789 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 300269002790 putative [Fe4-S4] binding site [ion binding]; other site 300269002791 putative molybdopterin cofactor binding site [chemical binding]; other site 300269002792 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 300269002793 putative molybdopterin cofactor binding site; other site 300269002794 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 300269002795 4Fe-4S binding domain; Region: Fer4; pfam00037 300269002796 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 300269002797 Isochorismatase family; Region: Isochorismatase; pfam00857 300269002798 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 300269002799 catalytic triad [active] 300269002800 dimer interface [polypeptide binding]; other site 300269002801 conserved cis-peptide bond; other site 300269002802 putative MFS family transporter protein; Provisional; Region: PRK03633 300269002803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269002804 putative substrate translocation pore; other site 300269002805 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002806 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 300269002807 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 300269002808 FeS/SAM binding site; other site 300269002809 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 300269002810 Pyruvate formate lyase 1; Region: PFL1; cd01678 300269002811 coenzyme A binding site [chemical binding]; other site 300269002812 active site 300269002813 catalytic residues [active] 300269002814 glycine loop; other site 300269002815 formate transporter; Provisional; Region: PRK10805 300269002816 uncharacterized domain; Region: TIGR00702 300269002817 YcaO-like family; Region: YcaO; pfam02624 300269002818 Predicted membrane protein [Function unknown]; Region: COG2323 300269002819 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 300269002820 homodimer interface [polypeptide binding]; other site 300269002821 substrate-cofactor binding pocket; other site 300269002822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269002823 catalytic residue [active] 300269002824 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 300269002825 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 300269002826 hinge; other site 300269002827 active site 300269002828 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269002829 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269002830 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269002831 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 300269002832 cytidylate kinase; Provisional; Region: cmk; PRK00023 300269002833 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 300269002834 CMP-binding site; other site 300269002835 The sites determining sugar specificity; other site 300269002836 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 300269002837 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 300269002838 RNA binding site [nucleotide binding]; other site 300269002839 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 300269002840 RNA binding site [nucleotide binding]; other site 300269002841 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 300269002842 RNA binding site [nucleotide binding]; other site 300269002843 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 300269002844 RNA binding site [nucleotide binding]; other site 300269002845 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 300269002846 RNA binding site [nucleotide binding]; other site 300269002847 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 300269002848 IHF dimer interface [polypeptide binding]; other site 300269002849 IHF - DNA interface [nucleotide binding]; other site 300269002850 ComEC family competence protein; Provisional; Region: PRK11539 300269002851 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 300269002852 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 300269002853 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 300269002854 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 300269002855 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 300269002856 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 300269002857 Walker A/P-loop; other site 300269002858 ATP binding site [chemical binding]; other site 300269002859 Q-loop/lid; other site 300269002860 ABC transporter signature motif; other site 300269002861 Walker B; other site 300269002862 D-loop; other site 300269002863 H-loop/switch region; other site 300269002864 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 300269002865 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 300269002866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 300269002867 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 300269002868 hypothetical protein; Provisional; Region: PRK11827 300269002869 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 300269002870 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 300269002871 Ligand binding site; other site 300269002872 oligomer interface; other site 300269002873 hypothetical protein; Provisional; Region: PRK10593 300269002874 Uncharacterized conserved protein [Function unknown]; Region: COG1434 300269002875 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 300269002876 putative active site [active] 300269002877 Methyltransferase domain; Region: Methyltransf_31; pfam13847 300269002878 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 300269002879 S-adenosylmethionine binding site [chemical binding]; other site 300269002880 condesin subunit F; Provisional; Region: PRK05260 300269002881 condesin subunit E; Provisional; Region: PRK05256 300269002882 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 300269002883 MukB N-terminal; Region: MukB; pfam04310 300269002884 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 300269002885 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269002886 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269002887 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269002888 murein L,D-transpeptidase; Provisional; Region: PRK10594 300269002889 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 300269002890 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269002891 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269002892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 300269002893 Peptidase M15; Region: Peptidase_M15_3; cl01194 300269002894 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 300269002895 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 300269002896 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 300269002897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269002898 homodimer interface [polypeptide binding]; other site 300269002899 catalytic residue [active] 300269002900 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269002901 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 300269002902 trimer interface [polypeptide binding]; other site 300269002903 eyelet of channel; other site 300269002904 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 300269002905 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 300269002906 putative dimer interface [polypeptide binding]; other site 300269002907 putative anticodon binding site; other site 300269002908 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 300269002909 homodimer interface [polypeptide binding]; other site 300269002910 motif 1; other site 300269002911 motif 2; other site 300269002912 active site 300269002913 motif 3; other site 300269002914 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 300269002915 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 300269002916 active site 300269002917 aminopeptidase N; Provisional; Region: pepN; PRK14015 300269002918 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 300269002919 active site 300269002920 Zn binding site [ion binding]; other site 300269002921 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 300269002922 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 300269002923 Walker A/P-loop; other site 300269002924 ATP binding site [chemical binding]; other site 300269002925 Q-loop/lid; other site 300269002926 ABC transporter signature motif; other site 300269002927 Walker B; other site 300269002928 D-loop; other site 300269002929 H-loop/switch region; other site 300269002930 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 300269002931 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 300269002932 dimer interface [polypeptide binding]; other site 300269002933 conserved gate region; other site 300269002934 putative PBP binding loops; other site 300269002935 ABC-ATPase subunit interface; other site 300269002936 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 300269002937 substrate binding pocket [chemical binding]; other site 300269002938 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 300269002939 membrane-bound complex binding site; other site 300269002940 hinge residues; other site 300269002941 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 300269002942 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 300269002943 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269002944 Fimbrial protein; Region: Fimbrial; cl01416 300269002945 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 300269002946 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269002947 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269002948 Fimbrial protein; Region: Fimbrial; cl01416 300269002949 Fimbrial protein; Region: Fimbrial; cl01416 300269002950 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 300269002951 putativi pili assembly chaperone; Provisional; Region: PRK11385 300269002952 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269002953 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269002954 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 300269002955 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 300269002956 quinone interaction residues [chemical binding]; other site 300269002957 active site 300269002958 catalytic residues [active] 300269002959 FMN binding site [chemical binding]; other site 300269002960 substrate binding site [chemical binding]; other site 300269002961 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 300269002962 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 300269002963 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 300269002964 MOSC domain; Region: MOSC; pfam03473 300269002965 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 300269002966 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 300269002967 catalytic loop [active] 300269002968 iron binding site [ion binding]; other site 300269002969 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 300269002970 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 300269002971 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 300269002972 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 300269002973 S-adenosylmethionine binding site [chemical binding]; other site 300269002974 ABC transporter ATPase component; Reviewed; Region: PRK11147 300269002975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269002977 Walker A/P-loop; other site 300269002978 Walker A/P-loop; other site 300269002979 ATP binding site [chemical binding]; other site 300269002980 ATP binding site [chemical binding]; other site 300269002981 Q-loop/lid; other site 300269002982 Q-loop/lid; other site 300269002983 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269002984 ABC transporter signature motif; other site 300269002985 Walker B; other site 300269002986 D-loop; other site 300269002987 ABC transporter; Region: ABC_tran_2; pfam12848 300269002988 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269002989 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 300269002990 Paraquat-inducible protein A; Region: PqiA; pfam04403 300269002991 Paraquat-inducible protein A; Region: PqiA; pfam04403 300269002992 paraquat-inducible protein B; Provisional; Region: PRK10807 300269002993 mce related protein; Region: MCE; pfam02470 300269002994 mce related protein; Region: MCE; pfam02470 300269002995 mce related protein; Region: MCE; pfam02470 300269002996 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 300269002997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 300269002998 Protein of unknown function (DUF330); Region: DUF330; pfam03886 300269002999 ribosome modulation factor; Provisional; Region: PRK14563 300269003000 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 300269003001 active site 1 [active] 300269003002 dimer interface [polypeptide binding]; other site 300269003003 active site 2 [active] 300269003004 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 300269003005 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 300269003006 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 300269003007 outer membrane protein A; Reviewed; Region: PRK10808 300269003008 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 300269003009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269003010 ligand binding site [chemical binding]; other site 300269003011 cell division inhibitor SulA; Region: sula; TIGR00623 300269003012 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 300269003013 TfoX C-terminal domain; Region: TfoX_C; pfam04994 300269003014 TIGR01666 family membrane protein; Region: YCCS 300269003015 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 300269003016 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269003017 Predicted membrane protein [Function unknown]; Region: COG3304 300269003018 Domain of unknown function (DUF307); Region: DUF307; pfam03733 300269003019 Domain of unknown function (DUF307); Region: DUF307; pfam03733 300269003020 DNA helicase IV; Provisional; Region: helD; PRK11054 300269003021 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 300269003022 Part of AAA domain; Region: AAA_19; pfam13245 300269003023 Family description; Region: UvrD_C_2; pfam13538 300269003024 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 300269003025 active site 300269003026 dimer interfaces [polypeptide binding]; other site 300269003027 catalytic residues [active] 300269003028 hypothetical protein; Provisional; Region: PRK03641 300269003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 300269003030 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003031 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 300269003032 heat shock protein HspQ; Provisional; Region: PRK14129 300269003033 Acylphosphatase; Region: Acylphosphatase; cl00551 300269003034 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 300269003035 sulfur transfer protein TusE; Provisional; Region: PRK11508 300269003036 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 300269003037 YccA-like proteins; Region: YccA_like; cd10433 300269003038 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269003039 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 300269003040 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 300269003041 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 300269003042 hydrogenase 1 large subunit; Provisional; Region: PRK10170 300269003043 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 300269003044 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 300269003045 putative substrate-binding site; other site 300269003046 nickel binding site [ion binding]; other site 300269003047 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 300269003048 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 300269003049 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 300269003050 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 300269003051 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 300269003052 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 300269003053 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 300269003054 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 300269003055 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 300269003056 catalytic core [active] 300269003057 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 300269003058 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 300269003059 Chain length determinant protein; Region: Wzz; pfam02706 300269003060 Chain length determinant protein; Region: Wzz; cl15801 300269003061 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 300269003062 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 300269003063 Nucleotide binding site [chemical binding]; other site 300269003064 Low molecular weight phosphatase family; Region: LMWPc; cd00115 300269003065 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 300269003066 active site 300269003067 polysaccharide export protein Wza; Provisional; Region: PRK15078 300269003068 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 300269003069 SLBB domain; Region: SLBB; pfam10531 300269003070 SLBB domain; Region: SLBB; pfam10531 300269003071 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 300269003072 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 300269003073 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 300269003074 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 300269003075 DNA-binding site [nucleotide binding]; DNA binding site 300269003076 RNA-binding motif; other site 300269003077 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003078 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 300269003079 DNA-binding site [nucleotide binding]; DNA binding site 300269003080 RNA-binding motif; other site 300269003081 cold shock gene; Provisional; Region: PRK09891 300269003082 GnsA/GnsB family; Region: GnsAB; pfam08178 300269003083 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 300269003084 HAMP domain; Region: HAMP; pfam00672 300269003085 dimerization interface [polypeptide binding]; other site 300269003086 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 300269003087 dimer interface [polypeptide binding]; other site 300269003088 phosphorylation site [posttranslational modification] 300269003089 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 300269003090 ATP binding site [chemical binding]; other site 300269003091 Mg2+ binding site [ion binding]; other site 300269003092 G-X-G motif; other site 300269003093 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 300269003094 active site 300269003095 phosphorylation site [posttranslational modification] 300269003096 intermolecular recognition site; other site 300269003097 dimerization interface [polypeptide binding]; other site 300269003098 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 300269003099 putative binding surface; other site 300269003100 active site 300269003101 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 300269003102 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 300269003103 putative ligand binding site [chemical binding]; other site 300269003104 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 300269003105 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 300269003106 active site 300269003107 phosphorylation site [posttranslational modification] 300269003108 intermolecular recognition site; other site 300269003109 dimerization interface [polypeptide binding]; other site 300269003110 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 300269003111 DNA binding site [nucleotide binding] 300269003112 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 300269003113 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 300269003114 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 300269003115 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 300269003116 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 300269003117 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 300269003118 HSP70 interaction site [polypeptide binding]; other site 300269003119 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 300269003120 substrate binding site [polypeptide binding]; other site 300269003121 dimer interface [polypeptide binding]; other site 300269003122 Homeodomain-like domain; Region: HTH_23; pfam13384 300269003123 Winged helix-turn helix; Region: HTH_29; pfam13551 300269003124 Homeodomain-like domain; Region: HTH_32; pfam13565 300269003125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269003126 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269003127 hypothetical protein; Provisional; Region: PRK09784 300269003128 hypothetical protein; Provisional; Region: PRK09784 300269003129 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 300269003130 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 300269003131 catalytic core [active] 300269003132 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 300269003133 hypothetical protein; Provisional; Region: PRK10174 300269003134 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 300269003135 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 300269003136 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269003137 HTH-like domain; Region: HTH_21; pfam13276 300269003138 Integrase core domain; Region: rve; pfam00665 300269003139 Integrase core domain; Region: rve_3; pfam13683 300269003140 Recombinase; Region: Recombinase; pfam07508 300269003141 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 300269003142 CENP-A-nucleosome distal (CAD) centromere subunit; Region: CENP-Q; pfam13094 300269003143 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 300269003144 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 300269003145 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 300269003146 Walker A motif; other site 300269003147 ATP binding site [chemical binding]; other site 300269003148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003149 Integrase core domain; Region: rve; pfam00665 300269003150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003151 tape measure domain; Region: tape_meas_nterm; TIGR02675 300269003152 Helix-turn-helix domain; Region: HTH_36; pfam13730 300269003153 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 300269003154 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 300269003155 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 300269003156 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 300269003157 putative FMN binding site [chemical binding]; other site 300269003158 pyrimidine utilization protein D; Region: RutD; TIGR03611 300269003159 Code: L; COG: COG1662; IS1 ORF 300269003160 Isochorismatase family; Region: Isochorismatase; pfam00857 300269003161 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 300269003162 catalytic triad [active] 300269003163 conserved cis-peptide bond; other site 300269003164 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003165 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 300269003166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269003167 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 300269003168 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 300269003169 Predicted transcriptional regulator [Transcription]; Region: COG3905 300269003170 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 300269003171 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 300269003172 Glutamate binding site [chemical binding]; other site 300269003173 NAD binding site [chemical binding]; other site 300269003174 catalytic residues [active] 300269003175 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 300269003176 Na binding site [ion binding]; other site 300269003177 FTR1 family protein; Region: TIGR00145 300269003178 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 300269003179 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 300269003180 Imelysin; Region: Peptidase_M75; pfam09375 300269003181 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 300269003182 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 300269003183 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 300269003184 hypothetical protein; Provisional; Region: PRK10536 300269003185 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 300269003186 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 300269003187 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 300269003188 putative ligand binding site [chemical binding]; other site 300269003189 NAD binding site [chemical binding]; other site 300269003190 dimerization interface [polypeptide binding]; other site 300269003191 catalytic site [active] 300269003192 putative hydrolase; Validated; Region: PRK09248 300269003193 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 300269003194 active site 300269003195 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 300269003196 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 300269003197 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 300269003198 curli assembly protein CsgF; Provisional; Region: PRK10050 300269003199 curli assembly protein CsgE; Provisional; Region: PRK10386 300269003200 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003201 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003202 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 300269003203 Curlin associated repeat; Region: Curlin_rpt; pfam07012 300269003204 Curlin associated repeat; Region: Curlin_rpt; pfam07012 300269003205 major curlin subunit; Provisional; Region: csgA; PRK10051 300269003206 Curlin associated repeat; Region: Curlin_rpt; pfam07012 300269003207 Curlin associated repeat; Region: Curlin_rpt; pfam07012 300269003208 Curlin associated repeat; Region: Curlin_rpt; pfam07012 300269003209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003210 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269003211 Integrase core domain; Region: rve; pfam00665 300269003212 Integrase core domain; Region: rve_3; cl15866 300269003213 transposase/IS protein; Provisional; Region: PRK09183 300269003214 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 300269003215 Walker A motif; other site 300269003216 ATP binding site [chemical binding]; other site 300269003217 Walker B motif; other site 300269003218 arginine finger; other site 300269003219 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 300269003220 Fimbrial protein; Region: Fimbrial; cl01416 300269003221 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 300269003222 putative ADP-ribose binding site [chemical binding]; other site 300269003223 putative active site [active] 300269003224 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 300269003225 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 300269003226 putative active site [active] 300269003227 catalytic site [active] 300269003228 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 300269003229 putative active site [active] 300269003230 catalytic site [active] 300269003231 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 300269003232 Acyltransferase family; Region: Acyl_transf_3; pfam01757 300269003233 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 300269003234 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 300269003235 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 300269003236 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 300269003237 Ligand binding site; other site 300269003238 DXD motif; other site 300269003239 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269003240 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269003241 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269003242 lipoprotein; Provisional; Region: PRK10175 300269003243 secY/secA suppressor protein; Provisional; Region: PRK11467 300269003244 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269003245 putative substrate translocation pore; other site 300269003246 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269003247 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269003248 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 300269003249 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 300269003250 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 300269003251 Walker A motif; other site 300269003252 ATP binding site [chemical binding]; other site 300269003253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003254 Integrase core domain; Region: rve; pfam00665 300269003255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003256 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269003257 HTH-like domain; Region: HTH_21; pfam13276 300269003258 Integrase core domain; Region: rve; pfam00665 300269003259 Integrase core domain; Region: rve_3; pfam13683 300269003260 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269003261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003262 Integrase core domain; Region: rve; pfam00665 300269003263 Integrase core domain; Region: rve_3; pfam13683 300269003264 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 300269003265 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 300269003266 putative acyl-acceptor binding pocket; other site 300269003267 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 300269003268 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 300269003269 active site residue [active] 300269003270 hypothetical protein; Provisional; Region: PRK03757 300269003271 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 300269003272 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003273 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 300269003274 hydroxyglutarate oxidase; Provisional; Region: PRK11728 300269003275 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 300269003276 DNA damage-inducible protein I; Provisional; Region: PRK10597 300269003277 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 300269003278 active site 300269003279 substrate binding pocket [chemical binding]; other site 300269003280 dimer interface [polypeptide binding]; other site 300269003281 lipoprotein; Provisional; Region: PRK10598 300269003282 glutaredoxin 2; Provisional; Region: PRK10387 300269003283 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 300269003284 C-terminal domain interface [polypeptide binding]; other site 300269003285 GSH binding site (G-site) [chemical binding]; other site 300269003286 catalytic residues [active] 300269003287 putative dimer interface [polypeptide binding]; other site 300269003288 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 300269003289 N-terminal domain interface [polypeptide binding]; other site 300269003290 multidrug resistance protein MdtH; Provisional; Region: PRK11646 300269003291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269003292 putative substrate translocation pore; other site 300269003293 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 300269003294 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 300269003295 hypothetical protein; Provisional; Region: PRK11239 300269003296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 300269003297 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 300269003298 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 300269003299 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 300269003300 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 300269003301 MviN-like protein; Region: MVIN; pfam03023 300269003302 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 300269003303 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 300269003304 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 300269003305 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 300269003306 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 300269003307 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 300269003308 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 300269003309 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 300269003310 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 300269003311 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 300269003312 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 300269003313 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 300269003314 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 300269003315 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 300269003316 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 300269003317 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 300269003318 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 300269003319 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 300269003320 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 300269003321 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 300269003322 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 300269003323 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 300269003324 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 300269003325 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 300269003326 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 300269003327 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 300269003328 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 300269003329 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 300269003330 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 300269003331 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 300269003332 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 300269003333 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 300269003334 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 300269003335 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 300269003336 homodimer interface [polypeptide binding]; other site 300269003337 oligonucleotide binding site [chemical binding]; other site 300269003338 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 300269003339 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 300269003340 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 300269003341 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 300269003342 RNA binding surface [nucleotide binding]; other site 300269003343 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 300269003344 active site 300269003345 Maf-like protein; Region: Maf; pfam02545 300269003346 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 300269003347 active site 300269003348 dimer interface [polypeptide binding]; other site 300269003349 hypothetical protein; Provisional; Region: PRK11193 300269003350 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 300269003351 putative phosphate acyltransferase; Provisional; Region: PRK05331 300269003352 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 300269003353 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 300269003354 dimer interface [polypeptide binding]; other site 300269003355 active site 300269003356 CoA binding pocket [chemical binding]; other site 300269003357 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 300269003358 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 300269003359 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 300269003360 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 300269003361 NAD(P) binding site [chemical binding]; other site 300269003362 homotetramer interface [polypeptide binding]; other site 300269003363 homodimer interface [polypeptide binding]; other site 300269003364 active site 300269003365 acyl carrier protein; Provisional; Region: acpP; PRK00982 300269003366 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 300269003367 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 300269003368 dimer interface [polypeptide binding]; other site 300269003369 active site 300269003370 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 300269003371 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 300269003372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269003373 catalytic residue [active] 300269003374 conserved hypothetical protein, YceG family; Region: TIGR00247 300269003375 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 300269003376 dimerization interface [polypeptide binding]; other site 300269003377 thymidylate kinase; Validated; Region: tmk; PRK00698 300269003378 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 300269003379 TMP-binding site; other site 300269003380 ATP-binding site [chemical binding]; other site 300269003381 DNA polymerase III subunit delta'; Validated; Region: PRK07993 300269003382 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 300269003383 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 300269003384 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 300269003385 active site 300269003386 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 300269003387 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 300269003388 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 300269003389 active site turn [active] 300269003390 phosphorylation site [posttranslational modification] 300269003391 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 300269003392 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 300269003393 N-terminal plug; other site 300269003394 ligand-binding site [chemical binding]; other site 300269003395 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 300269003396 nucleotide binding site/active site [active] 300269003397 HIT family signature motif; other site 300269003398 catalytic residue [active] 300269003399 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 300269003400 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 300269003401 putative dimer interface [polypeptide binding]; other site 300269003402 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 300269003403 thiamine kinase; Region: ycfN_thiK; TIGR02721 300269003404 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 300269003405 active site 300269003406 substrate binding site [chemical binding]; other site 300269003407 ATP binding site [chemical binding]; other site 300269003408 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 300269003409 beta-hexosaminidase; Provisional; Region: PRK05337 300269003410 hypothetical protein; Provisional; Region: PRK04940 300269003411 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 300269003412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269003413 hypothetical protein; Provisional; Region: PRK11280 300269003414 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 300269003415 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269003416 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269003417 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269003418 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269003419 transcription-repair coupling factor; Provisional; Region: PRK10689 300269003420 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 300269003421 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 300269003422 ATP binding site [chemical binding]; other site 300269003423 putative Mg++ binding site [ion binding]; other site 300269003424 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 300269003425 nucleotide binding region [chemical binding]; other site 300269003426 ATP-binding site [chemical binding]; other site 300269003427 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 300269003428 Predicted membrane protein [Function unknown]; Region: COG4763 300269003429 Acyltransferase family; Region: Acyl_transf_3; pfam01757 300269003430 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 300269003431 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 300269003432 FtsX-like permease family; Region: FtsX; pfam02687 300269003433 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 300269003434 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 300269003435 Walker A/P-loop; other site 300269003436 ATP binding site [chemical binding]; other site 300269003437 Q-loop/lid; other site 300269003438 ABC transporter signature motif; other site 300269003439 Walker B; other site 300269003440 D-loop; other site 300269003441 H-loop/switch region; other site 300269003442 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 300269003443 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 300269003444 FtsX-like permease family; Region: FtsX; pfam02687 300269003445 fructokinase; Reviewed; Region: PRK09557 300269003446 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269003447 nucleotide binding site [chemical binding]; other site 300269003448 NAD-dependent deacetylase; Provisional; Region: PRK00481 300269003449 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 300269003450 NAD+ binding site [chemical binding]; other site 300269003451 substrate binding site [chemical binding]; other site 300269003452 Zn binding site [ion binding]; other site 300269003453 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 300269003454 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 300269003455 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 300269003456 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 300269003457 dimer interface [polypeptide binding]; other site 300269003458 conserved gate region; other site 300269003459 putative PBP binding loops; other site 300269003460 ABC-ATPase subunit interface; other site 300269003461 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 300269003462 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 300269003463 dimer interface [polypeptide binding]; other site 300269003464 conserved gate region; other site 300269003465 putative PBP binding loops; other site 300269003466 ABC-ATPase subunit interface; other site 300269003467 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 300269003468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269003469 Walker A/P-loop; other site 300269003470 ATP binding site [chemical binding]; other site 300269003471 Q-loop/lid; other site 300269003472 ABC transporter signature motif; other site 300269003473 Walker B; other site 300269003474 D-loop; other site 300269003475 H-loop/switch region; other site 300269003476 TOBE domain; Region: TOBE_2; pfam08402 300269003477 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 300269003478 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 300269003479 metal binding site [ion binding]; metal-binding site 300269003480 dimer interface [polypeptide binding]; other site 300269003481 Uncharacterized conserved protein [Function unknown]; Region: COG2850 300269003482 Cupin-like domain; Region: Cupin_8; pfam13621 300269003483 sensor protein PhoQ; Provisional; Region: PRK10815 300269003484 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 300269003485 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 300269003486 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 300269003487 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 300269003488 ATP binding site [chemical binding]; other site 300269003489 Mg2+ binding site [ion binding]; other site 300269003490 G-X-G motif; other site 300269003491 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 300269003492 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 300269003493 active site 300269003494 phosphorylation site [posttranslational modification] 300269003495 intermolecular recognition site; other site 300269003496 dimerization interface [polypeptide binding]; other site 300269003497 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 300269003498 DNA binding site [nucleotide binding] 300269003499 adenylosuccinate lyase; Provisional; Region: PRK09285 300269003500 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 300269003501 tetramer interface [polypeptide binding]; other site 300269003502 active site 300269003503 putative lysogenization regulator; Reviewed; Region: PRK00218 300269003504 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 300269003505 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 300269003506 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 300269003507 nudix motif; other site 300269003508 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 300269003509 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 300269003510 probable active site [active] 300269003511 isocitrate dehydrogenase; Validated; Region: PRK07362 300269003512 isocitrate dehydrogenase; Reviewed; Region: PRK07006 300269003513 anti-adapter protein IraM; Provisional; Region: PRK09919 300269003514 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 300269003515 transcriptional regulator MirA; Provisional; Region: PRK15043 300269003516 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 300269003517 DNA binding residues [nucleotide binding] 300269003518 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003519 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269003520 HTH-like domain; Region: HTH_21; pfam13276 300269003521 Integrase core domain; Region: rve; pfam00665 300269003522 Integrase core domain; Region: rve_3; pfam13683 300269003523 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 300269003524 cell division inhibitor MinD; Provisional; Region: PRK10818 300269003525 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 300269003526 Switch I; other site 300269003527 Switch II; other site 300269003528 septum formation inhibitor; Reviewed; Region: minC; PRK03511 300269003529 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 300269003530 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 300269003531 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 300269003532 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 300269003533 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 300269003534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 300269003535 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 300269003536 hypothetical protein; Provisional; Region: PRK10691 300269003537 hypothetical protein; Provisional; Region: PRK05170 300269003538 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003539 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003540 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 300269003541 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 300269003542 Catalytic site [active] 300269003543 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269003544 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269003545 disulfide bond formation protein B; Provisional; Region: PRK01749 300269003546 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 300269003547 transmembrane helices; other site 300269003548 fatty acid metabolism regulator; Provisional; Region: PRK04984 300269003549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269003550 DNA-binding site [nucleotide binding]; DNA binding site 300269003551 FadR C-terminal domain; Region: FadR_C; pfam07840 300269003552 SpoVR family protein; Provisional; Region: PRK11767 300269003553 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 300269003554 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 300269003555 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269003556 alanine racemase; Reviewed; Region: dadX; PRK03646 300269003557 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 300269003558 active site 300269003559 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 300269003560 substrate binding site [chemical binding]; other site 300269003561 catalytic residues [active] 300269003562 dimer interface [polypeptide binding]; other site 300269003563 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 300269003564 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 300269003565 TrkA-C domain; Region: TrkA_C; pfam02080 300269003566 Transporter associated domain; Region: CorC_HlyC; smart01091 300269003567 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 300269003568 dimer interface [polypeptide binding]; other site 300269003569 catalytic triad [active] 300269003570 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 300269003571 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 300269003572 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269003573 catalytic residue [active] 300269003574 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 300269003575 Flagellar regulator YcgR; Region: YcgR; pfam07317 300269003576 PilZ domain; Region: PilZ; pfam07238 300269003577 hypothetical protein; Provisional; Region: PRK10457 300269003578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003579 Transposase; Region: HTH_Tnp_1; pfam01527 300269003580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003581 Integrase core domain; Region: rve; pfam00665 300269003582 Integrase core domain; Region: rve_3; pfam13683 300269003583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003584 Integrase core domain; Region: rve; pfam00665 300269003585 Integrase core domain; Region: rve_3; pfam13683 300269003586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003587 Transposase; Region: HTH_Tnp_1; pfam01527 300269003588 flagellin; Validated; Region: PRK08026 300269003589 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 300269003590 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 300269003591 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 300269003592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269003593 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 300269003594 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 300269003595 DNA binding residues [nucleotide binding] 300269003596 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269003597 cystine transporter subunit; Provisional; Region: PRK11260 300269003598 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 300269003599 substrate binding pocket [chemical binding]; other site 300269003600 membrane-bound complex binding site; other site 300269003601 hinge residues; other site 300269003602 Homeodomain-like domain; Region: HTH_23; pfam13384 300269003603 Winged helix-turn helix; Region: HTH_29; pfam13551 300269003604 Homeodomain-like domain; Region: HTH_32; pfam13565 300269003605 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269003606 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269003607 D-cysteine desulfhydrase; Validated; Region: PRK03910 300269003608 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 300269003609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269003610 catalytic residue [active] 300269003611 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269003612 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 300269003613 dimer interface [polypeptide binding]; other site 300269003614 conserved gate region; other site 300269003615 putative PBP binding loops; other site 300269003616 ABC-ATPase subunit interface; other site 300269003617 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 300269003618 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 300269003619 Walker A/P-loop; other site 300269003620 ATP binding site [chemical binding]; other site 300269003621 Q-loop/lid; other site 300269003622 ABC transporter signature motif; other site 300269003623 Walker B; other site 300269003624 D-loop; other site 300269003625 H-loop/switch region; other site 300269003626 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 300269003627 Autoinducer binding domain; Region: Autoind_bind; pfam03472 300269003628 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 300269003629 DNA binding residues [nucleotide binding] 300269003630 dimerization interface [polypeptide binding]; other site 300269003631 hypothetical protein; Provisional; Region: PRK10613 300269003632 response regulator; Provisional; Region: PRK09483 300269003633 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 300269003634 active site 300269003635 phosphorylation site [posttranslational modification] 300269003636 intermolecular recognition site; other site 300269003637 dimerization interface [polypeptide binding]; other site 300269003638 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 300269003639 DNA binding residues [nucleotide binding] 300269003640 dimerization interface [polypeptide binding]; other site 300269003641 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 300269003642 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 300269003643 GIY-YIG motif/motif A; other site 300269003644 active site 300269003645 catalytic site [active] 300269003646 putative DNA binding site [nucleotide binding]; other site 300269003647 metal binding site [ion binding]; metal-binding site 300269003648 UvrB/uvrC motif; Region: UVR; pfam02151 300269003649 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 300269003650 Helix-hairpin-helix motif; Region: HHH; pfam00633 300269003651 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 300269003652 hypothetical protein; Provisional; Region: PRK10396 300269003653 yecA family protein; Region: ygfB_yecA; TIGR02292 300269003654 SEC-C motif; Region: SEC-C; pfam02810 300269003655 tyrosine transporter TyrP; Provisional; Region: PRK15132 300269003656 aromatic amino acid transport protein; Region: araaP; TIGR00837 300269003657 probable metal-binding protein; Region: matur_matur; TIGR03853 300269003658 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 300269003659 Ferritin-like domain; Region: Ferritin; pfam00210 300269003660 ferroxidase diiron center [ion binding]; other site 300269003661 YecR-like lipoprotein; Region: YecR; pfam13992 300269003662 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 300269003663 Ferritin-like domain; Region: Ferritin; pfam00210 300269003664 ferroxidase diiron center [ion binding]; other site 300269003665 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 300269003666 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 300269003667 ligand binding site [chemical binding]; other site 300269003668 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 300269003669 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 300269003670 Walker A/P-loop; other site 300269003671 ATP binding site [chemical binding]; other site 300269003672 Q-loop/lid; other site 300269003673 ABC transporter signature motif; other site 300269003674 Walker B; other site 300269003675 D-loop; other site 300269003676 H-loop/switch region; other site 300269003677 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 300269003678 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 300269003679 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269003680 TM-ABC transporter signature motif; other site 300269003681 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 300269003682 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 300269003683 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 300269003684 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 300269003685 active site 300269003686 homotetramer interface [polypeptide binding]; other site 300269003687 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 300269003688 Ligand Binding Site [chemical binding]; other site 300269003689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003690 Integrase core domain; Region: rve; pfam00665 300269003691 Integrase core domain; Region: rve_3; pfam13683 300269003692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003693 Transposase; Region: HTH_Tnp_1; pfam01527 300269003694 transcriptional activator FlhD; Provisional; Region: PRK02909 300269003695 transcriptional activator FlhC; Provisional; Region: PRK12722 300269003696 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 300269003697 flagellar motor protein MotA; Validated; Region: PRK09110 300269003698 flagellar motor protein MotB; Validated; Region: motB; PRK09041 300269003699 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 300269003700 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269003701 ligand binding site [chemical binding]; other site 300269003702 chemotaxis protein CheA; Provisional; Region: PRK10547 300269003703 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 300269003704 putative binding surface; other site 300269003705 active site 300269003706 CheY binding; Region: CheY-binding; pfam09078 300269003707 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 300269003708 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 300269003709 ATP binding site [chemical binding]; other site 300269003710 Mg2+ binding site [ion binding]; other site 300269003711 G-X-G motif; other site 300269003712 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 300269003713 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 300269003714 putative CheA interaction surface; other site 300269003715 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 300269003716 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 300269003717 dimer interface [polypeptide binding]; other site 300269003718 ligand binding site [chemical binding]; other site 300269003719 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 300269003720 dimerization interface [polypeptide binding]; other site 300269003721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 300269003722 dimer interface [polypeptide binding]; other site 300269003723 putative CheW interface [polypeptide binding]; other site 300269003724 methyl-accepting protein IV; Provisional; Region: PRK09793 300269003725 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 300269003726 dimer interface [polypeptide binding]; other site 300269003727 ligand binding site [chemical binding]; other site 300269003728 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 300269003729 dimerization interface [polypeptide binding]; other site 300269003730 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 300269003731 dimer interface [polypeptide binding]; other site 300269003732 putative CheW interface [polypeptide binding]; other site 300269003733 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 300269003734 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 300269003735 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 300269003736 S-adenosylmethionine binding site [chemical binding]; other site 300269003737 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 300269003738 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 300269003739 active site 300269003740 phosphorylation site [posttranslational modification] 300269003741 intermolecular recognition site; other site 300269003742 dimerization interface [polypeptide binding]; other site 300269003743 CheB methylesterase; Region: CheB_methylest; pfam01339 300269003744 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 300269003745 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 300269003746 active site 300269003747 phosphorylation site [posttranslational modification] 300269003748 intermolecular recognition site; other site 300269003749 dimerization interface [polypeptide binding]; other site 300269003750 chemotaxis regulator CheZ; Provisional; Region: PRK11166 300269003751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269003752 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269003753 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269003755 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269003756 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 300269003757 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 300269003758 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 300269003759 arginyl-tRNA synthetase; Region: argS; TIGR00456 300269003760 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 300269003761 active site 300269003762 HIGH motif; other site 300269003763 KMSK motif region; other site 300269003764 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 300269003765 tRNA binding surface [nucleotide binding]; other site 300269003766 anticodon binding site; other site 300269003767 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 300269003768 putative metal binding site [ion binding]; other site 300269003769 copper homeostasis protein CutC; Provisional; Region: PRK11572 300269003770 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 300269003771 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 300269003772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003773 Transposase; Region: HTH_Tnp_1; pfam01527 300269003774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003775 Integrase core domain; Region: rve; pfam00665 300269003776 Integrase core domain; Region: rve_3; pfam13683 300269003777 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 300269003778 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 300269003779 molybdopterin cofactor binding site [chemical binding]; other site 300269003780 substrate binding site [chemical binding]; other site 300269003781 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 300269003782 molybdopterin cofactor binding site; other site 300269003783 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 300269003784 S-adenosylmethionine binding site [chemical binding]; other site 300269003785 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 300269003786 S-adenosylmethionine binding site [chemical binding]; other site 300269003787 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 300269003788 multiple promoter invertase; Provisional; Region: mpi; PRK13413 300269003789 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 300269003790 catalytic residues [active] 300269003791 catalytic nucleophile [active] 300269003792 Presynaptic Site I dimer interface [polypeptide binding]; other site 300269003793 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 300269003794 Synaptic Flat tetramer interface [polypeptide binding]; other site 300269003795 Synaptic Site I dimer interface [polypeptide binding]; other site 300269003796 DNA binding site [nucleotide binding] 300269003797 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 300269003798 DNA-binding interface [nucleotide binding]; DNA binding site 300269003799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003800 Transposase; Region: HTH_Tnp_1; pfam01527 300269003801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003802 Integrase core domain; Region: rve; pfam00665 300269003803 Integrase core domain; Region: rve_3; pfam13683 300269003804 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 300269003805 Antitermination protein; Region: Antiterm; pfam03589 300269003806 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 300269003807 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 300269003808 transposase/IS protein; Provisional; Region: PRK09183 300269003809 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 300269003810 Walker A motif; other site 300269003811 ATP binding site [chemical binding]; other site 300269003812 Walker B motif; other site 300269003813 arginine finger; other site 300269003814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269003815 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269003816 Integrase core domain; Region: rve; pfam00665 300269003817 Integrase core domain; Region: rve_3; cl15866 300269003818 Transposase; Region: HTH_Tnp_1; cl17663 300269003819 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269003820 HTH-like domain; Region: HTH_21; pfam13276 300269003821 Integrase core domain; Region: rve; pfam00665 300269003822 Integrase core domain; Region: rve_3; pfam13683 300269003823 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003824 Transposase; Region: HTH_Tnp_1; pfam01527 300269003825 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003827 Integrase core domain; Region: rve; pfam00665 300269003828 Integrase core domain; Region: rve_3; pfam13683 300269003829 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269003830 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269003831 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 300269003832 DinI-like family; Region: DinI; pfam06183 300269003833 Isochorismatase family; Region: Isochorismatase; pfam00857 300269003834 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 300269003835 catalytic triad [active] 300269003836 conserved cis-peptide bond; other site 300269003837 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 300269003838 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 300269003839 dimer interface [polypeptide binding]; other site 300269003840 anticodon binding site; other site 300269003841 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 300269003842 homodimer interface [polypeptide binding]; other site 300269003843 motif 1; other site 300269003844 active site 300269003845 motif 2; other site 300269003846 GAD domain; Region: GAD; pfam02938 300269003847 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 300269003848 motif 3; other site 300269003849 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 300269003850 nudix motif; other site 300269003851 hypothetical protein; Validated; Region: PRK00110 300269003852 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 300269003853 active site 300269003854 putative DNA-binding cleft [nucleotide binding]; other site 300269003855 dimer interface [polypeptide binding]; other site 300269003856 hypothetical protein; Provisional; Region: PRK11470 300269003857 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 300269003858 RuvA N terminal domain; Region: RuvA_N; pfam01330 300269003859 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 300269003860 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 300269003861 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 300269003862 Walker A motif; other site 300269003863 ATP binding site [chemical binding]; other site 300269003864 Walker B motif; other site 300269003865 arginine finger; other site 300269003866 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 300269003867 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 300269003868 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 300269003869 ABC-ATPase subunit interface; other site 300269003870 dimer interface [polypeptide binding]; other site 300269003871 putative PBP binding regions; other site 300269003872 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 300269003873 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 300269003874 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 300269003875 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 300269003876 metal binding site [ion binding]; metal-binding site 300269003877 putative peptidase; Provisional; Region: PRK11649 300269003878 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 300269003879 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269003880 Peptidase family M23; Region: Peptidase_M23; pfam01551 300269003881 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 300269003882 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 300269003883 putative acyl-acceptor binding pocket; other site 300269003884 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 300269003885 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 300269003886 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003887 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 300269003888 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 300269003889 active site 300269003890 catalytic site [active] 300269003891 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 300269003892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 300269003893 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 300269003894 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003895 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 300269003896 pyruvate kinase; Provisional; Region: PRK05826 300269003897 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 300269003898 domain interfaces; other site 300269003899 active site 300269003900 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 300269003901 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 300269003902 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 300269003903 putative active site [active] 300269003904 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 300269003905 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 300269003906 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 300269003907 phosphogluconate dehydratase; Validated; Region: PRK09054 300269003908 6-phosphogluconate dehydratase; Region: edd; TIGR01196 300269003909 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 300269003910 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 300269003911 active site 300269003912 intersubunit interface [polypeptide binding]; other site 300269003913 catalytic residue [active] 300269003914 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 300269003915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 300269003916 ATP-grasp domain; Region: ATP-grasp; pfam02222 300269003917 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 300269003918 hypothetical protein; Provisional; Region: PRK13680 300269003919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 300269003920 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 300269003921 putative metal binding site [ion binding]; other site 300269003922 protease 2; Provisional; Region: PRK10115 300269003923 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 300269003924 exodeoxyribonuclease X; Provisional; Region: PRK07983 300269003925 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 300269003926 active site 300269003927 catalytic site [active] 300269003928 substrate binding site [chemical binding]; other site 300269003929 Predicted amidohydrolase [General function prediction only]; Region: COG0388 300269003930 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 300269003931 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 300269003932 hypothetical protein; Provisional; Region: PRK10301 300269003933 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 300269003934 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 300269003935 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 300269003936 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 300269003937 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 300269003938 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 300269003939 dimer interface [polypeptide binding]; other site 300269003940 active site 300269003941 Int/Topo IB signature motif; other site 300269003942 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269003943 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269003944 HTH-like domain; Region: HTH_21; pfam13276 300269003945 Integrase core domain; Region: rve; pfam00665 300269003946 Integrase core domain; Region: rve_3; pfam13683 300269003947 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269003948 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003949 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269003950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003951 Transposase; Region: HTH_Tnp_1; pfam01527 300269003952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003953 Integrase core domain; Region: rve; pfam00665 300269003954 Integrase core domain; Region: rve_3; pfam13683 300269003955 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269003956 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 300269003957 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 300269003958 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 300269003959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003960 Integrase core domain; Region: rve; pfam00665 300269003961 Integrase core domain; Region: rve_3; pfam13683 300269003962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003963 Transposase; Region: HTH_Tnp_1; pfam01527 300269003964 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269003965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269003966 Transposase; Region: HTH_Tnp_1; pfam01527 300269003967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269003968 Integrase core domain; Region: rve; pfam00665 300269003969 Integrase core domain; Region: rve_3; pfam13683 300269003970 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 300269003971 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269003972 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 300269003973 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 300269003974 S-adenosylmethionine binding site [chemical binding]; other site 300269003975 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 300269003976 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 300269003977 mce related protein; Region: MCE; pfam02470 300269003978 mce related protein; Region: MCE; pfam02470 300269003979 mce related protein; Region: MCE; pfam02470 300269003980 mce related protein; Region: MCE; pfam02470 300269003981 mce related protein; Region: MCE; pfam02470 300269003982 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 300269003983 Paraquat-inducible protein A; Region: PqiA; pfam04403 300269003984 Paraquat-inducible protein A; Region: PqiA; pfam04403 300269003985 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 300269003986 GAF domain; Region: GAF_2; pfam13185 300269003987 ProP expression regulator; Provisional; Region: PRK04950 300269003988 ProQ/FINO family; Region: ProQ; pfam04352 300269003989 carboxy-terminal protease; Provisional; Region: PRK11186 300269003990 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 300269003991 protein binding site [polypeptide binding]; other site 300269003992 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 300269003993 Catalytic dyad [active] 300269003994 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 300269003995 heat shock protein HtpX; Provisional; Region: PRK05457 300269003996 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 300269003997 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 300269003998 dimerization interface [polypeptide binding]; other site 300269003999 putative Zn2+ binding site [ion binding]; other site 300269004000 putative DNA binding site [nucleotide binding]; other site 300269004001 Bacterial transcriptional regulator; Region: IclR; pfam01614 300269004002 PhoPQ regulatory protein; Provisional; Region: PRK10299 300269004003 YebO-like protein; Region: YebO; pfam13974 300269004004 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 300269004005 DNA-binding site [nucleotide binding]; DNA binding site 300269004006 RNA-binding motif; other site 300269004007 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 300269004008 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 300269004009 S-adenosylmethionine binding site [chemical binding]; other site 300269004010 hypothetical protein; Provisional; Region: PRK11469 300269004011 Domain of unknown function DUF; Region: DUF204; pfam02659 300269004012 Domain of unknown function DUF; Region: DUF204; pfam02659 300269004013 Predicted membrane protein [Function unknown]; Region: COG4811 300269004014 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 300269004015 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 300269004016 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 300269004017 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 300269004018 active pocket/dimerization site; other site 300269004019 active site 300269004020 phosphorylation site [posttranslational modification] 300269004021 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 300269004022 active site 300269004023 phosphorylation site [posttranslational modification] 300269004024 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 300269004025 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 300269004026 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 300269004027 Transporter associated domain; Region: CorC_HlyC; smart01091 300269004028 phage resistance protein; Provisional; Region: PRK10551 300269004029 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 300269004030 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 300269004031 L-serine deaminase; Provisional; Region: PRK15023 300269004032 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 300269004033 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 300269004034 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 300269004035 putative active site [active] 300269004036 putative CoA binding site [chemical binding]; other site 300269004037 nudix motif; other site 300269004038 metal binding site [ion binding]; metal-binding site 300269004039 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 300269004040 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 300269004041 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 300269004042 hypothetical protein; Provisional; Region: PRK05114 300269004043 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 300269004044 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004045 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 300269004046 homotrimer interaction site [polypeptide binding]; other site 300269004047 putative active site [active] 300269004048 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 300269004049 DEAD/DEAH box helicase; Region: DEAD; pfam00270 300269004050 DEAD_2; Region: DEAD_2; pfam06733 300269004051 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 300269004052 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 300269004053 Glycoprotease family; Region: Peptidase_M22; pfam00814 300269004054 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 300269004055 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 300269004056 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 300269004057 acyl-activating enzyme (AAE) consensus motif; other site 300269004058 putative AMP binding site [chemical binding]; other site 300269004059 putative active site [active] 300269004060 putative CoA binding site [chemical binding]; other site 300269004061 ribonuclease D; Provisional; Region: PRK10829 300269004062 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 300269004063 catalytic site [active] 300269004064 putative active site [active] 300269004065 putative substrate binding site [chemical binding]; other site 300269004066 Helicase and RNase D C-terminal; Region: HRDC; smart00341 300269004067 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 300269004068 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 300269004069 FMN-binding pocket [chemical binding]; other site 300269004070 flavin binding motif; other site 300269004071 phosphate binding motif [ion binding]; other site 300269004072 beta-alpha-beta structure motif; other site 300269004073 NAD binding pocket [chemical binding]; other site 300269004074 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 300269004075 catalytic loop [active] 300269004076 iron binding site [ion binding]; other site 300269004077 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 300269004078 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 300269004079 [2Fe-2S] cluster binding site [ion binding]; other site 300269004080 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 300269004081 putative alpha subunit interface [polypeptide binding]; other site 300269004082 putative active site [active] 300269004083 putative substrate binding site [chemical binding]; other site 300269004084 Fe binding site [ion binding]; other site 300269004085 putative transporter; Provisional; Region: PRK09950 300269004086 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 300269004087 tartrate dehydrogenase; Region: TTC; TIGR02089 300269004088 transcriptional activator TtdR; Provisional; Region: PRK09801 300269004089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269004090 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 300269004091 putative effector binding pocket; other site 300269004092 putative dimerization interface [polypeptide binding]; other site 300269004093 leucine export protein LeuE; Provisional; Region: PRK10958 300269004094 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 300269004095 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 300269004096 hypothetical protein; Provisional; Region: PRK10457 300269004097 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 300269004098 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 300269004099 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269004100 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004101 metal binding site [ion binding]; metal-binding site 300269004102 active site 300269004103 I-site; other site 300269004104 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 300269004105 Domain of unknown function (DUF333); Region: DUF333; pfam03891 300269004106 Uncharacterized conserved protein [Function unknown]; Region: COG3189 300269004107 cyanate transporter; Region: CynX; TIGR00896 300269004108 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004109 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269004110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269004111 Predicted membrane protein [Function unknown]; Region: COG2707 300269004112 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 300269004113 putative deacylase active site [active] 300269004114 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269004115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004116 metal binding site [ion binding]; metal-binding site 300269004117 active site 300269004118 I-site; other site 300269004119 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004120 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269004121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004122 metal binding site [ion binding]; metal-binding site 300269004123 active site 300269004124 I-site; other site 300269004125 hypothetical protein; Provisional; Region: PRK05325 300269004126 PrkA family serine protein kinase; Provisional; Region: PRK15455 300269004127 AAA ATPase domain; Region: AAA_16; pfam13191 300269004128 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 300269004129 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 300269004130 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 300269004131 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269004132 active site 300269004133 catalytic tetrad [active] 300269004134 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 300269004135 active site 300269004136 phosphate binding residues; other site 300269004137 catalytic residues [active] 300269004138 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269004139 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269004140 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004141 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 300269004142 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 300269004143 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 300269004144 methionine sulfoxide reductase B; Provisional; Region: PRK00222 300269004145 SelR domain; Region: SelR; pfam01641 300269004146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 300269004147 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 300269004148 Isochorismatase family; Region: Isochorismatase; pfam00857 300269004149 catalytic triad [active] 300269004150 metal binding site [ion binding]; metal-binding site 300269004151 conserved cis-peptide bond; other site 300269004152 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 300269004153 active site 300269004154 homodimer interface [polypeptide binding]; other site 300269004155 protease 4; Provisional; Region: PRK10949 300269004156 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 300269004157 tandem repeat interface [polypeptide binding]; other site 300269004158 oligomer interface [polypeptide binding]; other site 300269004159 active site residues [active] 300269004160 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 300269004161 tandem repeat interface [polypeptide binding]; other site 300269004162 oligomer interface [polypeptide binding]; other site 300269004163 active site residues [active] 300269004164 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 300269004165 putative FMN binding site [chemical binding]; other site 300269004166 selenophosphate synthetase; Provisional; Region: PRK00943 300269004167 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 300269004168 dimerization interface [polypeptide binding]; other site 300269004169 putative ATP binding site [chemical binding]; other site 300269004170 DNA topoisomerase III; Provisional; Region: PRK07726 300269004171 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 300269004172 active site 300269004173 putative interdomain interaction site [polypeptide binding]; other site 300269004174 putative metal-binding site [ion binding]; other site 300269004175 putative nucleotide binding site [chemical binding]; other site 300269004176 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 300269004177 domain I; other site 300269004178 DNA binding groove [nucleotide binding] 300269004179 phosphate binding site [ion binding]; other site 300269004180 domain II; other site 300269004181 domain III; other site 300269004182 nucleotide binding site [chemical binding]; other site 300269004183 catalytic site [active] 300269004184 domain IV; other site 300269004185 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004186 glutamate dehydrogenase; Provisional; Region: PRK09414 300269004187 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 300269004188 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 300269004189 NAD(P) binding site [chemical binding]; other site 300269004190 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 300269004191 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 300269004192 active site 300269004193 8-oxo-dGMP binding site [chemical binding]; other site 300269004194 nudix motif; other site 300269004195 metal binding site [ion binding]; metal-binding site 300269004196 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004197 Rhodanese Homology Domain; Region: RHOD; smart00450 300269004198 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 300269004199 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 300269004200 active site residue [active] 300269004201 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 300269004202 active site residue [active] 300269004203 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 300269004204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269004205 Walker A/P-loop; other site 300269004206 ATP binding site [chemical binding]; other site 300269004207 Q-loop/lid; other site 300269004208 ABC transporter signature motif; other site 300269004209 Walker B; other site 300269004210 D-loop; other site 300269004211 H-loop/switch region; other site 300269004212 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 300269004213 hypothetical protein; Provisional; Region: PRK11622 300269004214 Uncharacterized conserved protein [Function unknown]; Region: COG2128 300269004215 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 300269004216 Uncharacterized conserved protein [Function unknown]; Region: COG0398 300269004217 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 300269004218 Uncharacterized conserved protein [Function unknown]; Region: COG0398 300269004219 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 300269004220 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 300269004221 putative catalytic site [active] 300269004222 putative phosphate binding site [ion binding]; other site 300269004223 active site 300269004224 metal binding site A [ion binding]; metal-binding site 300269004225 DNA binding site [nucleotide binding] 300269004226 putative AP binding site [nucleotide binding]; other site 300269004227 putative metal binding site B [ion binding]; other site 300269004228 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 300269004229 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 300269004230 inhibitor-cofactor binding pocket; inhibition site 300269004231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269004232 catalytic residue [active] 300269004233 arginine succinyltransferase; Provisional; Region: PRK10456 300269004234 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 300269004235 succinylarginine dihydrolase; Provisional; Region: PRK13281 300269004236 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 300269004237 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 300269004238 putative active site [active] 300269004239 Zn binding site [ion binding]; other site 300269004240 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 300269004241 dimer interface [polypeptide binding]; other site 300269004242 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004243 hypothetical protein; Provisional; Region: PRK11396 300269004244 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 300269004245 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 300269004246 GIY-YIG motif/motif A; other site 300269004247 active site 300269004248 catalytic site [active] 300269004249 putative DNA binding site [nucleotide binding]; other site 300269004250 metal binding site [ion binding]; metal-binding site 300269004251 NAD+ synthetase; Region: nadE; TIGR00552 300269004252 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 300269004253 homodimer interface [polypeptide binding]; other site 300269004254 NAD binding pocket [chemical binding]; other site 300269004255 ATP binding pocket [chemical binding]; other site 300269004256 Mg binding site [ion binding]; other site 300269004257 active-site loop [active] 300269004258 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 300269004259 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 300269004260 active site 300269004261 P-loop; other site 300269004262 phosphorylation site [posttranslational modification] 300269004263 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 300269004264 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 300269004265 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 300269004266 methionine cluster; other site 300269004267 active site 300269004268 phosphorylation site [posttranslational modification] 300269004269 metal binding site [ion binding]; metal-binding site 300269004270 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 300269004271 Cupin domain; Region: Cupin_2; pfam07883 300269004272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269004273 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 300269004274 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 300269004275 NAD binding site [chemical binding]; other site 300269004276 sugar binding site [chemical binding]; other site 300269004277 divalent metal binding site [ion binding]; other site 300269004278 tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269004279 dimer interface [polypeptide binding]; other site 300269004280 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 300269004281 putative active site [active] 300269004282 YdjC motif; other site 300269004283 Mg binding site [ion binding]; other site 300269004284 putative homodimer interface [polypeptide binding]; other site 300269004285 hydroperoxidase II; Provisional; Region: katE; PRK11249 300269004286 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 300269004287 tetramer interface [polypeptide binding]; other site 300269004288 heme binding pocket [chemical binding]; other site 300269004289 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 300269004290 domain interactions; other site 300269004291 cell division modulator; Provisional; Region: PRK10113 300269004292 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 300269004293 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 300269004294 inner membrane protein; Provisional; Region: PRK11648 300269004295 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 300269004296 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 300269004297 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 300269004298 motif II; other site 300269004299 YniB-like protein; Region: YniB; pfam14002 300269004300 Phosphotransferase enzyme family; Region: APH; pfam01636 300269004301 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 300269004302 active site 300269004303 ATP binding site [chemical binding]; other site 300269004304 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 300269004305 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 300269004306 6-phosphofructokinase 2; Provisional; Region: PRK10294 300269004307 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 300269004308 putative substrate binding site [chemical binding]; other site 300269004309 putative ATP binding site [chemical binding]; other site 300269004310 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 300269004311 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004312 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 300269004313 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 300269004314 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 300269004315 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 300269004316 active site 300269004317 dimer interface [polypeptide binding]; other site 300269004318 motif 1; other site 300269004319 motif 2; other site 300269004320 motif 3; other site 300269004321 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 300269004322 anticodon binding site; other site 300269004323 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 300269004324 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 300269004325 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 300269004326 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 300269004327 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 300269004328 23S rRNA binding site [nucleotide binding]; other site 300269004329 L21 binding site [polypeptide binding]; other site 300269004330 L13 binding site [polypeptide binding]; other site 300269004331 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 300269004332 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 300269004333 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 300269004334 dimer interface [polypeptide binding]; other site 300269004335 motif 1; other site 300269004336 active site 300269004337 motif 2; other site 300269004338 motif 3; other site 300269004339 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 300269004340 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 300269004341 putative tRNA-binding site [nucleotide binding]; other site 300269004342 B3/4 domain; Region: B3_4; pfam03483 300269004343 tRNA synthetase B5 domain; Region: B5; smart00874 300269004344 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 300269004345 dimer interface [polypeptide binding]; other site 300269004346 motif 1; other site 300269004347 motif 3; other site 300269004348 motif 2; other site 300269004349 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 300269004350 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 300269004351 IHF dimer interface [polypeptide binding]; other site 300269004352 IHF - DNA interface [nucleotide binding]; other site 300269004353 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 300269004354 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 300269004355 ABC-ATPase subunit interface; other site 300269004356 dimer interface [polypeptide binding]; other site 300269004357 putative PBP binding regions; other site 300269004358 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 300269004359 catalytic residues [active] 300269004360 dimer interface [polypeptide binding]; other site 300269004361 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 300269004362 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 300269004363 Walker A/P-loop; other site 300269004364 ATP binding site [chemical binding]; other site 300269004365 Q-loop/lid; other site 300269004366 ABC transporter signature motif; other site 300269004367 Walker B; other site 300269004368 D-loop; other site 300269004369 H-loop/switch region; other site 300269004370 NlpC/P60 family; Region: NLPC_P60; pfam00877 300269004371 Homeodomain-like domain; Region: HTH_23; pfam13384 300269004372 Winged helix-turn helix; Region: HTH_29; pfam13551 300269004373 Homeodomain-like domain; Region: HTH_32; pfam13565 300269004374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269004375 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269004376 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 300269004377 Uncharacterized conserved protein [Function unknown]; Region: COG0397 300269004378 hypothetical protein; Validated; Region: PRK00029 300269004379 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 300269004380 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 300269004381 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 300269004382 PEP synthetase regulatory protein; Provisional; Region: PRK05339 300269004383 phosphoenolpyruvate synthase; Validated; Region: PRK06464 300269004384 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 300269004385 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 300269004386 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 300269004387 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004388 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 300269004389 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 300269004390 active site 300269004391 catalytic residue [active] 300269004392 dimer interface [polypeptide binding]; other site 300269004393 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 300269004394 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 300269004395 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 300269004396 shikimate binding site; other site 300269004397 NAD(P) binding site [chemical binding]; other site 300269004398 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004399 putative substrate translocation pore; other site 300269004400 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004401 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 300269004402 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004403 putative inner membrane protein; Provisional; Region: PRK10983 300269004404 Domain of unknown function DUF20; Region: UPF0118; pfam01594 300269004405 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 300269004406 FAD binding domain; Region: FAD_binding_4; pfam01565 300269004407 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 300269004408 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 300269004409 CoenzymeA binding site [chemical binding]; other site 300269004410 subunit interaction site [polypeptide binding]; other site 300269004411 PHB binding site; other site 300269004412 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 300269004413 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 300269004414 putative ABC transporter; Region: ycf24; CHL00085 300269004415 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 300269004416 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 300269004417 Walker A/P-loop; other site 300269004418 ATP binding site [chemical binding]; other site 300269004419 Q-loop/lid; other site 300269004420 ABC transporter signature motif; other site 300269004421 Walker B; other site 300269004422 D-loop; other site 300269004423 H-loop/switch region; other site 300269004424 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 300269004425 FeS assembly protein SufD; Region: sufD; TIGR01981 300269004426 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 300269004427 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 300269004428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 300269004429 catalytic residue [active] 300269004430 cysteine desufuration protein SufE; Provisional; Region: PRK09296 300269004431 L,D-transpeptidase; Provisional; Region: PRK10190 300269004432 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269004433 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 300269004434 murein lipoprotein; Provisional; Region: PRK15396 300269004435 pyruvate kinase; Provisional; Region: PRK09206 300269004436 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 300269004437 domain interfaces; other site 300269004438 active site 300269004439 hypothetical protein; Provisional; Region: PRK10292 300269004440 hypothetical protein; Provisional; Region: PRK09898 300269004441 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269004442 putative oxidoreductase; Provisional; Region: PRK09849 300269004443 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 300269004444 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 300269004445 hypothetical protein; Provisional; Region: PRK09947 300269004446 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 300269004447 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 300269004448 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 300269004449 hypothetical protein; Provisional; Region: PRK09946 300269004450 hypothetical protein; Provisional; Region: PRK09897 300269004451 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 300269004452 putative monooxygenase; Provisional; Region: PRK11118 300269004453 hypothetical protein; Provisional; Region: PRK09945 300269004454 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 300269004455 multidrug efflux protein; Reviewed; Region: PRK01766 300269004456 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 300269004457 cation binding site [ion binding]; other site 300269004458 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 300269004459 Lumazine binding domain; Region: Lum_binding; pfam00677 300269004460 Lumazine binding domain; Region: Lum_binding; pfam00677 300269004461 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 300269004462 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 300269004463 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 300269004464 S-adenosylmethionine binding site [chemical binding]; other site 300269004465 putative transporter; Provisional; Region: PRK11043 300269004466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004467 putative substrate translocation pore; other site 300269004468 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 300269004469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269004470 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 300269004471 dimerization interface [polypeptide binding]; other site 300269004472 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 300269004473 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269004474 DNA binding site [nucleotide binding] 300269004475 domain linker motif; other site 300269004476 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 300269004477 dimerization interface [polypeptide binding]; other site 300269004478 ligand binding site [chemical binding]; other site 300269004479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269004481 putative substrate translocation pore; other site 300269004482 superoxide dismutase; Provisional; Region: PRK10543 300269004483 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 300269004484 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 300269004485 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 300269004486 NlpC/P60 family; Region: NLPC_P60; pfam00877 300269004487 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 300269004488 putative GSH binding site [chemical binding]; other site 300269004489 catalytic residues [active] 300269004490 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 300269004491 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 300269004492 dimer interface [polypeptide binding]; other site 300269004493 catalytic site [active] 300269004494 putative active site [active] 300269004495 putative substrate binding site [chemical binding]; other site 300269004496 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 300269004497 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 300269004498 dimer interface [polypeptide binding]; other site 300269004499 active site 300269004500 metal binding site [ion binding]; metal-binding site 300269004501 glutathione binding site [chemical binding]; other site 300269004502 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 300269004503 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 300269004504 FMN binding site [chemical binding]; other site 300269004505 active site 300269004506 substrate binding site [chemical binding]; other site 300269004507 catalytic residue [active] 300269004508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 300269004509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269004510 Predicted Fe-S protein [General function prediction only]; Region: COG3313 300269004511 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 300269004512 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269004513 active site 300269004514 catalytic tetrad [active] 300269004515 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 300269004516 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 300269004517 E-class dimer interface [polypeptide binding]; other site 300269004518 P-class dimer interface [polypeptide binding]; other site 300269004519 active site 300269004520 Cu2+ binding site [ion binding]; other site 300269004521 Zn2+ binding site [ion binding]; other site 300269004522 Fusaric acid resistance protein family; Region: FUSC; pfam04632 300269004523 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269004524 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 300269004525 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269004526 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269004527 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 300269004528 transcriptional regulator SlyA; Provisional; Region: PRK03573 300269004529 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 300269004530 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 300269004531 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 300269004532 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 300269004533 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 300269004534 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 300269004535 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 300269004536 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 300269004537 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 300269004538 active site 300269004539 HIGH motif; other site 300269004540 dimer interface [polypeptide binding]; other site 300269004541 KMSKS motif; other site 300269004542 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 300269004543 RNA binding surface [nucleotide binding]; other site 300269004544 pyridoxamine kinase; Validated; Region: PRK05756 300269004545 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 300269004546 dimer interface [polypeptide binding]; other site 300269004547 pyridoxal binding site [chemical binding]; other site 300269004548 ATP binding site [chemical binding]; other site 300269004549 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004550 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269004551 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269004552 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269004553 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 300269004554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004555 putative substrate translocation pore; other site 300269004556 POT family; Region: PTR2; pfam00854 300269004557 endonuclease III; Provisional; Region: PRK10702 300269004558 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 300269004559 minor groove reading motif; other site 300269004560 helix-hairpin-helix signature motif; other site 300269004561 substrate binding pocket [chemical binding]; other site 300269004562 active site 300269004563 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 300269004564 electron transport complex RsxE subunit; Provisional; Region: PRK12405 300269004565 electron transport complex protein RnfG; Validated; Region: PRK01908 300269004566 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 300269004567 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 300269004568 SLBB domain; Region: SLBB; pfam10531 300269004569 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269004570 electron transport complex protein RnfB; Provisional; Region: PRK05113 300269004571 Putative Fe-S cluster; Region: FeS; pfam04060 300269004572 4Fe-4S binding domain; Region: Fer4; pfam00037 300269004573 electron transport complex protein RsxA; Provisional; Region: PRK05151 300269004574 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 300269004575 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 300269004576 putative oxidoreductase; Provisional; Region: PRK11579 300269004577 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 300269004578 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 300269004579 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 300269004580 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 300269004581 active site 300269004582 purine riboside binding site [chemical binding]; other site 300269004583 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 300269004584 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 300269004585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269004586 homodimer interface [polypeptide binding]; other site 300269004587 catalytic residue [active] 300269004588 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 300269004589 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 300269004590 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 300269004591 active site turn [active] 300269004592 phosphorylation site [posttranslational modification] 300269004593 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 300269004594 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269004595 DNA binding site [nucleotide binding] 300269004596 domain linker motif; other site 300269004597 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 300269004598 putative dimerization interface [polypeptide binding]; other site 300269004599 putative ligand binding site [chemical binding]; other site 300269004600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269004601 Transposase; Region: HTH_Tnp_1; pfam01527 300269004602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269004603 Integrase core domain; Region: rve; pfam00665 300269004604 Integrase core domain; Region: rve_3; pfam13683 300269004605 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 300269004606 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 300269004607 NAD binding site [chemical binding]; other site 300269004608 substrate binding site [chemical binding]; other site 300269004609 homotetramer interface [polypeptide binding]; other site 300269004610 homodimer interface [polypeptide binding]; other site 300269004611 active site 300269004612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 300269004613 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269004614 beta-D-glucuronidase; Provisional; Region: PRK10150 300269004615 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 300269004616 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 300269004617 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 300269004618 glucuronide transporter; Provisional; Region: PRK09848 300269004619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004620 putative substrate translocation pore; other site 300269004621 putative outer membrane porin protein; Provisional; Region: PRK11379 300269004622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 300269004623 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 300269004624 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 300269004625 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 300269004626 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 300269004627 fumarate hydratase; Provisional; Region: PRK15389 300269004628 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 300269004629 Fumarase C-terminus; Region: Fumerase_C; pfam05683 300269004630 fumarate hydratase; Reviewed; Region: fumC; PRK00485 300269004631 Class II fumarases; Region: Fumarase_classII; cd01362 300269004632 active site 300269004633 tetramer interface [polypeptide binding]; other site 300269004634 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 300269004635 sensor protein RstB; Provisional; Region: PRK10604 300269004636 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 300269004637 dimerization interface [polypeptide binding]; other site 300269004638 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 300269004639 dimer interface [polypeptide binding]; other site 300269004640 phosphorylation site [posttranslational modification] 300269004641 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 300269004642 ATP binding site [chemical binding]; other site 300269004643 Mg2+ binding site [ion binding]; other site 300269004644 G-X-G motif; other site 300269004645 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 300269004646 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 300269004647 active site 300269004648 phosphorylation site [posttranslational modification] 300269004649 intermolecular recognition site; other site 300269004650 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 300269004651 DNA binding site [nucleotide binding] 300269004652 Uncharacterized membrane protein required for alginate biosynthesis [General function prediction only]; Region: GlpM; COG3136 300269004653 dihydromonapterin reductase; Provisional; Region: PRK06483 300269004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 300269004655 NAD(P) binding site [chemical binding]; other site 300269004656 active site 300269004657 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 300269004658 Spore germination protein; Region: Spore_permease; cl17796 300269004659 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269004660 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269004661 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269004662 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 300269004663 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 300269004664 ligand binding site [chemical binding]; other site 300269004665 homodimer interface [polypeptide binding]; other site 300269004666 NAD(P) binding site [chemical binding]; other site 300269004667 trimer interface B [polypeptide binding]; other site 300269004668 trimer interface A [polypeptide binding]; other site 300269004669 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 300269004670 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 300269004671 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 300269004672 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 300269004673 Domain of unknown function DUF20; Region: UPF0118; pfam01594 300269004674 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 300269004675 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 300269004676 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 300269004677 Integrase core domain; Region: rve; pfam00665 300269004678 Integrase core domain; Region: rve_3; pfam13683 300269004679 transposase/IS protein; Provisional; Region: PRK09183 300269004680 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 300269004681 Walker A motif; other site 300269004682 ATP binding site [chemical binding]; other site 300269004683 Walker B motif; other site 300269004684 arginine finger; other site 300269004685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269004686 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269004687 Integrase core domain; Region: rve; pfam00665 300269004688 Integrase core domain; Region: rve_3; cl15866 300269004689 HTH-like domain; Region: HTH_21; pfam13276 300269004690 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 300269004691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004692 putative substrate translocation pore; other site 300269004693 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 300269004694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269004695 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 300269004696 dimerization interface [polypeptide binding]; other site 300269004697 substrate binding pocket [chemical binding]; other site 300269004698 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 300269004699 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 300269004700 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269004701 nucleotide binding site [chemical binding]; other site 300269004702 putative dithiobiotin synthetase; Provisional; Region: PRK12374 300269004703 AAA domain; Region: AAA_26; pfam13500 300269004704 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 300269004705 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 300269004706 Cl- selectivity filter; other site 300269004707 Cl- binding residues [ion binding]; other site 300269004708 pore gating glutamate residue; other site 300269004709 dimer interface [polypeptide binding]; other site 300269004710 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 300269004711 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 300269004712 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 300269004713 4Fe-4S binding domain; Region: Fer4; cl02805 300269004714 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004715 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 300269004716 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 300269004717 primosomal protein DnaI; Provisional; Region: PRK02854 300269004718 putative replication protein; Provisional; Region: PRK12377 300269004719 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 300269004720 Walker A motif; other site 300269004721 ATP binding site [chemical binding]; other site 300269004722 Walker B motif; other site 300269004723 arginine finger; other site 300269004724 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 300269004725 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 300269004726 Methyltransferase domain; Region: Methyltransf_26; pfam13659 300269004727 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 300269004728 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 300269004729 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004730 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 300269004731 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 300269004732 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 300269004733 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 300269004734 Transcriptional regulators [Transcription]; Region: GntR; COG1802 300269004735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269004736 DNA-binding site [nucleotide binding]; DNA binding site 300269004737 FCD domain; Region: FCD; pfam07729 300269004738 malonic semialdehyde reductase; Provisional; Region: PRK10538 300269004739 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 300269004740 putative NAD(P) binding site [chemical binding]; other site 300269004741 homodimer interface [polypeptide binding]; other site 300269004742 homotetramer interface [polypeptide binding]; other site 300269004743 active site 300269004744 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 300269004745 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 300269004746 active site 300269004747 Zn binding site [ion binding]; other site 300269004748 hypothetical protein; Validated; Region: PRK03657 300269004749 hypothetical protein; Provisional; Region: PRK10053 300269004750 diguanylate cyclase; Provisional; Region: PRK09894 300269004751 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 300269004752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004753 metal binding site [ion binding]; metal-binding site 300269004754 active site 300269004755 I-site; other site 300269004756 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004757 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 300269004758 beta-galactosidase; Region: BGL; TIGR03356 300269004759 hypothetical protein; Provisional; Region: PRK10106 300269004760 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 300269004761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269004762 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 300269004763 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 300269004764 inner membrane protein; Provisional; Region: PRK10995 300269004765 putative arabinose transporter; Provisional; Region: PRK03545 300269004766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269004767 putative substrate translocation pore; other site 300269004768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269004769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269004770 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 300269004771 putative dimerization interface [polypeptide binding]; other site 300269004772 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 300269004773 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 300269004774 NAD(P) binding site [chemical binding]; other site 300269004775 catalytic residues [active] 300269004776 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 300269004777 glutaminase; Provisional; Region: PRK00971 300269004778 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269004779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269004780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004781 metal binding site [ion binding]; metal-binding site 300269004782 active site 300269004783 I-site; other site 300269004784 altronate oxidoreductase; Provisional; Region: PRK03643 300269004785 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 300269004786 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 300269004787 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004788 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 300269004789 Homeodomain-like domain; Region: HTH_23; pfam13384 300269004790 Winged helix-turn helix; Region: HTH_29; pfam13551 300269004791 Homeodomain-like domain; Region: HTH_32; pfam13565 300269004792 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269004793 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269004794 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 300269004795 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 300269004796 non-specific DNA binding site [nucleotide binding]; other site 300269004797 salt bridge; other site 300269004798 sequence-specific DNA binding site [nucleotide binding]; other site 300269004799 Integrase core domain; Region: rve; pfam00665 300269004800 Integrase core domain; Region: rve_3; pfam13683 300269004801 Integrase core domain; Region: rve; pfam00665 300269004802 Integrase core domain; Region: rve_3; pfam13683 300269004803 transposase/IS protein; Provisional; Region: PRK09183 300269004804 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 300269004805 Walker A motif; other site 300269004806 ATP binding site [chemical binding]; other site 300269004807 Walker B motif; other site 300269004808 arginine finger; other site 300269004809 Integrase core domain; Region: rve_3; pfam13683 300269004810 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 300269004811 mannosyl binding site [chemical binding]; other site 300269004812 Fimbrial protein; Region: Fimbrial; pfam00419 300269004813 putative oxidoreductase; Provisional; Region: PRK09939 300269004814 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 300269004815 putative molybdopterin cofactor binding site [chemical binding]; other site 300269004816 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 300269004817 putative molybdopterin cofactor binding site; other site 300269004818 transcriptional regulator YdeO; Provisional; Region: PRK09940 300269004819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269004820 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 300269004821 Sulfatase; Region: Sulfatase; pfam00884 300269004822 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 300269004823 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 300269004824 FeS/SAM binding site; other site 300269004825 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 300269004826 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 300269004827 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 300269004828 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 300269004829 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269004830 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269004831 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004832 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 300269004833 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 300269004834 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 300269004835 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 300269004836 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 300269004837 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 300269004838 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 300269004839 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 300269004840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269004841 catalytic residue [active] 300269004842 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 300269004843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 300269004844 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 300269004845 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 300269004846 heme-binding site [chemical binding]; other site 300269004847 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269004848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004849 metal binding site [ion binding]; metal-binding site 300269004850 active site 300269004851 I-site; other site 300269004852 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 300269004853 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 300269004854 putative active site [active] 300269004855 heme pocket [chemical binding]; other site 300269004856 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 300269004857 putative active site [active] 300269004858 heme pocket [chemical binding]; other site 300269004859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269004860 metal binding site [ion binding]; metal-binding site 300269004861 active site 300269004862 I-site; other site 300269004863 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 300269004864 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 300269004865 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 300269004866 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 300269004867 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 300269004868 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 300269004869 dimer interface [polypeptide binding]; other site 300269004870 conserved gate region; other site 300269004871 putative PBP binding loops; other site 300269004872 ABC-ATPase subunit interface; other site 300269004873 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 300269004874 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 300269004875 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 300269004876 dimer interface [polypeptide binding]; other site 300269004877 conserved gate region; other site 300269004878 putative PBP binding loops; other site 300269004879 ABC-ATPase subunit interface; other site 300269004880 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 300269004881 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269004882 Walker A/P-loop; other site 300269004883 ATP binding site [chemical binding]; other site 300269004884 Q-loop/lid; other site 300269004885 ABC transporter signature motif; other site 300269004886 Walker B; other site 300269004887 D-loop; other site 300269004888 H-loop/switch region; other site 300269004889 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269004890 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269004891 ABC transporter; Region: ABC_tran; pfam00005 300269004892 Q-loop/lid; other site 300269004893 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 300269004894 ABC transporter signature motif; other site 300269004895 Walker B; other site 300269004896 D-loop; other site 300269004897 H-loop/switch region; other site 300269004898 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 300269004899 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 300269004900 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269004901 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 300269004902 malate dehydrogenase; Provisional; Region: PRK13529 300269004903 Malic enzyme, N-terminal domain; Region: malic; pfam00390 300269004904 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 300269004905 NAD(P) binding site [chemical binding]; other site 300269004906 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 300269004907 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 300269004908 non-specific DNA binding site [nucleotide binding]; other site 300269004909 salt bridge; other site 300269004910 sequence-specific DNA binding site [nucleotide binding]; other site 300269004911 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 300269004912 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 300269004913 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 300269004914 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 300269004915 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 300269004916 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 300269004917 [4Fe-4S] binding site [ion binding]; other site 300269004918 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269004919 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 300269004920 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 300269004921 molybdopterin cofactor binding site; other site 300269004922 aromatic amino acid exporter; Provisional; Region: PRK11689 300269004923 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269004924 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 300269004925 trimer interface [polypeptide binding]; other site 300269004926 eyelet of channel; other site 300269004927 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 300269004928 Homeodomain-like domain; Region: HTH_23; pfam13384 300269004929 Winged helix-turn helix; Region: HTH_29; pfam13551 300269004930 Homeodomain-like domain; Region: HTH_32; pfam13565 300269004931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269004932 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269004933 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269004934 HTH-like domain; Region: HTH_21; pfam13276 300269004935 Integrase core domain; Region: rve; pfam00665 300269004936 Integrase core domain; Region: rve_3; pfam13683 300269004937 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 300269004938 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 300269004939 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 300269004940 [4Fe-4S] binding site [ion binding]; other site 300269004941 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269004942 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269004943 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269004944 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 300269004945 molybdopterin cofactor binding site; other site 300269004946 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 300269004947 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 300269004948 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 300269004949 hypothetical protein; Provisional; Region: PRK10281 300269004950 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 300269004951 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 300269004952 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 300269004953 active site 1 [active] 300269004954 dimer interface [polypeptide binding]; other site 300269004955 hexamer interface [polypeptide binding]; other site 300269004956 active site 2 [active] 300269004957 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004959 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004960 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 300269004961 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 300269004962 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004963 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004964 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004965 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269004966 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 300269004967 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 300269004968 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 300269004969 Walker A motif; other site 300269004970 ATP binding site [chemical binding]; other site 300269004971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269004972 Integrase core domain; Region: rve; pfam00665 300269004973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269004974 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269004975 PAAR motif; Region: PAAR_motif; cl15808 300269004976 RHS Repeat; Region: RHS_repeat; pfam05593 300269004977 RHS Repeat; Region: RHS_repeat; pfam05593 300269004978 RHS Repeat; Region: RHS_repeat; cl11982 300269004979 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269004980 RHS Repeat; Region: RHS_repeat; pfam05593 300269004981 RHS Repeat; Region: RHS_repeat; pfam05593 300269004982 RHS protein; Region: RHS; pfam03527 300269004983 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269004984 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004985 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269004986 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004987 Transposase [DNA replication, recombination, and repair]; Region: COG5433 300269004988 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269004989 RHS Repeat; Region: RHS_repeat; pfam05593 300269004990 RHS Repeat; Region: RHS_repeat; pfam05593 300269004991 RHS Repeat; Region: RHS_repeat; pfam05593 300269004992 RHS Repeat; Region: RHS_repeat; pfam05593 300269004993 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269004994 RHS Repeat; Region: RHS_repeat; pfam05593 300269004995 RHS Repeat; Region: RHS_repeat; pfam05593 300269004996 RHS protein; Region: RHS; pfam03527 300269004997 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269004998 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 300269004999 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 300269005000 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 300269005001 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 300269005002 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 300269005003 C-terminal domain interface [polypeptide binding]; other site 300269005004 GSH binding site (G-site) [chemical binding]; other site 300269005005 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 300269005006 dimer interface [polypeptide binding]; other site 300269005007 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 300269005008 dimer interface [polypeptide binding]; other site 300269005009 N-terminal domain interface [polypeptide binding]; other site 300269005010 substrate binding pocket (H-site) [chemical binding]; other site 300269005011 L-asparagine permease; Provisional; Region: PRK15049 300269005012 PQQ-like domain; Region: PQQ_2; pfam13360 300269005013 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 300269005014 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 300269005015 N-terminal plug; other site 300269005016 ligand-binding site [chemical binding]; other site 300269005017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005018 Transposase; Region: HTH_Tnp_1; pfam01527 300269005019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005020 Integrase core domain; Region: rve; pfam00665 300269005021 Integrase core domain; Region: rve_3; pfam13683 300269005022 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269005023 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 300269005024 Prostaglandin dehydrogenases; Region: PGDH; cd05288 300269005025 NAD(P) binding site [chemical binding]; other site 300269005026 substrate binding site [chemical binding]; other site 300269005027 dimer interface [polypeptide binding]; other site 300269005028 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 300269005029 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 300269005030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 300269005031 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 300269005032 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 300269005033 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005034 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 300269005035 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 300269005036 tetrameric interface [polypeptide binding]; other site 300269005037 NAD binding site [chemical binding]; other site 300269005038 catalytic residues [active] 300269005039 substrate binding site [chemical binding]; other site 300269005040 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 300269005041 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 300269005042 ABC-ATPase subunit interface; other site 300269005043 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 300269005044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269005045 Walker A/P-loop; other site 300269005046 ATP binding site [chemical binding]; other site 300269005047 Q-loop/lid; other site 300269005048 ABC transporter signature motif; other site 300269005049 Walker B; other site 300269005050 D-loop; other site 300269005051 H-loop/switch region; other site 300269005052 TOBE domain; Region: TOBE_2; pfam08402 300269005053 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 300269005054 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 300269005055 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 300269005056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269005057 DNA-binding site [nucleotide binding]; DNA binding site 300269005058 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 300269005059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269005060 homodimer interface [polypeptide binding]; other site 300269005061 catalytic residue [active] 300269005062 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 300269005063 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 300269005064 sequence-specific DNA binding site [nucleotide binding]; other site 300269005065 salt bridge; other site 300269005066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005067 Transposase; Region: HTH_Tnp_1; pfam01527 300269005068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005069 Integrase core domain; Region: rve; pfam00665 300269005070 Integrase core domain; Region: rve_3; pfam13683 300269005071 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 300269005072 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 300269005073 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 300269005074 Peptidase family U32; Region: Peptidase_U32; pfam01136 300269005075 Collagenase; Region: DUF3656; pfam12392 300269005076 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 300269005077 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 300269005078 non-specific DNA binding site [nucleotide binding]; other site 300269005079 salt bridge; other site 300269005080 sequence-specific DNA binding site [nucleotide binding]; other site 300269005081 Cupin domain; Region: Cupin_2; pfam07883 300269005082 putative transposase OrfB; Reviewed; Region: PHA02517 300269005083 Integrase core domain; Region: rve; pfam00665 300269005084 Integrase core domain; Region: rve_3; pfam13683 300269005085 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005087 Transposase; Region: HTH_Tnp_1; pfam01527 300269005088 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 300269005089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 300269005090 Probable transposase; Region: OrfB_IS605; pfam01385 300269005091 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 300269005092 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005093 tellurite resistance protein TehB; Provisional; Region: PRK11207 300269005094 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 300269005095 S-adenosylmethionine binding site [chemical binding]; other site 300269005096 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 300269005097 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 300269005098 gating phenylalanine in ion channel; other site 300269005099 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 300269005100 putative trimer interface [polypeptide binding]; other site 300269005101 putative CoA binding site [chemical binding]; other site 300269005102 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cd00208 300269005103 putative trimer interface [polypeptide binding]; other site 300269005104 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 300269005105 putative CoA binding site [chemical binding]; other site 300269005106 putative trimer interface [polypeptide binding]; other site 300269005107 putative CoA binding site [chemical binding]; other site 300269005108 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 300269005109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269005110 Coenzyme A binding pocket [chemical binding]; other site 300269005111 hypothetical protein; Provisional; Region: PRK11415 300269005112 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 300269005113 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 300269005114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 300269005115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 300269005116 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 300269005117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269005118 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 300269005119 dimerization interface [polypeptide binding]; other site 300269005120 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 300269005121 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 300269005122 dimer interface [polypeptide binding]; other site 300269005123 ligand binding site [chemical binding]; other site 300269005124 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 300269005125 dimerization interface [polypeptide binding]; other site 300269005126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 300269005127 dimer interface [polypeptide binding]; other site 300269005128 putative CheW interface [polypeptide binding]; other site 300269005129 hypothetical protein; Provisional; Region: PRK10040 300269005130 cytochrome b561; Provisional; Region: PRK11513 300269005131 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 300269005132 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 300269005133 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 300269005134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005135 Integrase core domain; Region: rve; pfam00665 300269005136 Integrase core domain; Region: rve_3; pfam13683 300269005137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005138 Transposase; Region: HTH_Tnp_1; pfam01527 300269005139 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005141 Integrase core domain; Region: rve; pfam00665 300269005142 Integrase core domain; Region: rve_3; pfam13683 300269005143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005144 Transposase; Region: HTH_Tnp_1; pfam01527 300269005145 Uncharacterized conserved protein [Function unknown]; Region: COG1434 300269005146 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 300269005147 putative active site [active] 300269005148 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 300269005149 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 300269005150 ATP binding site [chemical binding]; other site 300269005151 putative Mg++ binding site [ion binding]; other site 300269005152 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 300269005153 nucleotide binding region [chemical binding]; other site 300269005154 ATP-binding site [chemical binding]; other site 300269005155 Helicase associated domain (HA2); Region: HA2; pfam04408 300269005156 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 300269005157 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 300269005158 azoreductase; Reviewed; Region: PRK00170 300269005159 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 300269005160 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 300269005161 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 300269005162 active site 300269005163 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 300269005164 active site 300269005165 catalytic residues [active] 300269005166 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 300269005167 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 300269005168 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 300269005169 S-adenosylmethionine binding site [chemical binding]; other site 300269005170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005171 Integrase core domain; Region: rve; pfam00665 300269005172 Integrase core domain; Region: rve_3; pfam13683 300269005173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005174 Transposase; Region: HTH_Tnp_1; pfam01527 300269005175 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269005176 HTH-like domain; Region: HTH_21; pfam13276 300269005177 Integrase core domain; Region: rve; pfam00665 300269005178 Integrase core domain; Region: rve_3; pfam13683 300269005179 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 300269005180 hypothetical protein; Provisional; Region: PRK10695 300269005181 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 300269005182 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 300269005183 putative ligand binding site [chemical binding]; other site 300269005184 putative NAD binding site [chemical binding]; other site 300269005185 catalytic site [active] 300269005186 heat-inducible protein; Provisional; Region: PRK10449 300269005187 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 300269005188 Domain of unknown function (DUF333); Region: DUF333; pfam03891 300269005189 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 300269005190 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 300269005191 dimer interface [polypeptide binding]; other site 300269005192 PYR/PP interface [polypeptide binding]; other site 300269005193 TPP binding site [chemical binding]; other site 300269005194 substrate binding site [chemical binding]; other site 300269005195 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 300269005196 Domain of unknown function; Region: EKR; smart00890 300269005197 4Fe-4S binding domain; Region: Fer4_6; pfam12837 300269005198 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269005199 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 300269005200 TPP-binding site [chemical binding]; other site 300269005201 dimer interface [polypeptide binding]; other site 300269005202 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269005203 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 300269005204 trimer interface [polypeptide binding]; other site 300269005205 eyelet of channel; other site 300269005206 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 300269005207 Ligand Binding Site [chemical binding]; other site 300269005208 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 300269005209 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 300269005210 metal binding site [ion binding]; metal-binding site 300269005211 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 300269005212 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 300269005213 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 300269005214 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 300269005215 ABC-ATPase subunit interface; other site 300269005216 dimer interface [polypeptide binding]; other site 300269005217 putative PBP binding regions; other site 300269005218 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 300269005219 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 300269005220 ABC-ATPase subunit interface; other site 300269005221 dimer interface [polypeptide binding]; other site 300269005222 putative PBP binding regions; other site 300269005223 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269005224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005225 Integrase core domain; Region: rve; pfam00665 300269005226 Integrase core domain; Region: rve_3; pfam13683 300269005227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005228 Transposase; Region: HTH_Tnp_1; pfam01527 300269005229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269005230 Integrase core domain; Region: rve; pfam00665 300269005231 Integrase core domain; Region: rve_3; cl15866 300269005232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005233 Transposase; Region: HTH_Tnp_1; pfam01527 300269005234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005235 Integrase core domain; Region: rve; pfam00665 300269005236 Integrase core domain; Region: rve_3; pfam13683 300269005237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269005238 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 300269005239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 300269005240 Phage-related protein, tail component [Function unknown]; Region: COG4733 300269005241 Putative phage tail protein; Region: Phage-tail_3; pfam13550 300269005242 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 300269005243 Interdomain contacts; other site 300269005244 Cytokine receptor motif; other site 300269005245 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 300269005246 Fibronectin type III protein; Region: DUF3672; pfam12421 300269005247 Phage-related protein, tail component [Function unknown]; Region: COG4723 300269005248 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 300269005249 MPN+ (JAMM) motif; other site 300269005250 Zinc-binding site [ion binding]; other site 300269005251 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 300269005252 NlpC/P60 family; Region: NLPC_P60; cl17555 300269005253 Phage-related protein [Function unknown]; Region: gp18; COG4672 300269005254 Phage-related protein [Function unknown]; Region: COG4718 300269005255 Phage-related minor tail protein [Function unknown]; Region: COG5281 300269005256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005257 Transposase; Region: HTH_Tnp_1; pfam01527 300269005258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005259 Transposase; Region: HTH_Tnp_1; pfam01527 300269005260 HTH-like domain; Region: HTH_21; pfam13276 300269005261 Integrase core domain; Region: rve; pfam00665 300269005262 Integrase core domain; Region: rve_3; pfam13683 300269005263 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 300269005264 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 300269005265 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005266 Protein of unknown function (DUF551); Region: DUF551; pfam04448 300269005267 Protein of unknown function (DUF4014); Region: DUF4014; pfam13198 300269005268 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005270 Transposase; Region: HTH_Tnp_1; pfam01527 300269005271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005272 Integrase core domain; Region: rve; pfam00665 300269005273 Integrase core domain; Region: rve_3; pfam13683 300269005274 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 300269005275 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 300269005276 Ligand Binding Site [chemical binding]; other site 300269005277 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 300269005278 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 300269005279 ATP binding site [chemical binding]; other site 300269005280 Mg++ binding site [ion binding]; other site 300269005281 motif III; other site 300269005282 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 300269005283 nucleotide binding region [chemical binding]; other site 300269005284 ATP-binding site [chemical binding]; other site 300269005285 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 300269005286 putative RNA binding site [nucleotide binding]; other site 300269005287 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 300269005288 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 300269005289 Cl binding site [ion binding]; other site 300269005290 oligomer interface [polypeptide binding]; other site 300269005291 PAS domain S-box; Region: sensory_box; TIGR00229 300269005292 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 300269005293 putative active site [active] 300269005294 heme pocket [chemical binding]; other site 300269005295 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269005296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269005297 metal binding site [ion binding]; metal-binding site 300269005298 active site 300269005299 I-site; other site 300269005300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 300269005301 Smr domain; Region: Smr; pfam01713 300269005302 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 300269005303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269005304 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 300269005305 putative substrate binding pocket [chemical binding]; other site 300269005306 putative dimerization interface [polypeptide binding]; other site 300269005307 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 300269005308 amidohydrolase; Region: amidohydrolases; TIGR01891 300269005309 putative metal binding site [ion binding]; other site 300269005310 dimer interface [polypeptide binding]; other site 300269005311 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 300269005312 amidohydrolase; Region: amidohydrolases; TIGR01891 300269005313 putative metal binding site [ion binding]; other site 300269005314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005315 Transposase; Region: HTH_Tnp_1; pfam01527 300269005316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005317 Integrase core domain; Region: rve; pfam00665 300269005318 Integrase core domain; Region: rve_3; pfam13683 300269005319 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 300269005320 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 300269005321 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 300269005322 DNA binding site [nucleotide binding] 300269005323 active site 300269005324 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 300269005325 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 300269005326 ligand binding site [chemical binding]; other site 300269005327 flexible hinge region; other site 300269005328 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 300269005329 putative switch regulator; other site 300269005330 non-specific DNA interactions [nucleotide binding]; other site 300269005331 DNA binding site [nucleotide binding] 300269005332 sequence specific DNA binding site [nucleotide binding]; other site 300269005333 putative cAMP binding site [chemical binding]; other site 300269005334 universal stress protein UspE; Provisional; Region: PRK11175 300269005335 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 300269005336 Ligand Binding Site [chemical binding]; other site 300269005337 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 300269005338 Ligand Binding Site [chemical binding]; other site 300269005339 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 300269005340 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005341 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 300269005342 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 300269005343 peptide binding site [polypeptide binding]; other site 300269005344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269005345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269005346 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 300269005347 putative effector binding pocket; other site 300269005348 putative dimerization interface [polypeptide binding]; other site 300269005349 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 300269005350 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 300269005351 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 300269005352 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 300269005353 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005354 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 300269005355 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 300269005356 NADH(P)-binding; Region: NAD_binding_10; pfam13460 300269005357 putative NAD(P) binding site [chemical binding]; other site 300269005358 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005359 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 300269005360 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 300269005361 putative active site [active] 300269005362 Zn binding site [ion binding]; other site 300269005363 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 300269005364 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 300269005365 active site 300269005366 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 300269005367 dimer interface [polypeptide binding]; other site 300269005368 catalytic triad [active] 300269005369 peroxidatic and resolving cysteines [active] 300269005370 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 300269005371 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 300269005372 putative aromatic amino acid binding site; other site 300269005373 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 300269005374 Walker A motif; other site 300269005375 ATP binding site [chemical binding]; other site 300269005376 Walker B motif; other site 300269005377 arginine finger; other site 300269005378 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005379 Predicted membrane protein [Function unknown]; Region: COG3768 300269005380 TIGR01620 family protein; Region: hyp_HI0043 300269005381 Predicted ATPase [General function prediction only]; Region: COG3106 300269005382 Transcriptional regulators [Transcription]; Region: PurR; COG1609 300269005383 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269005384 DNA binding site [nucleotide binding] 300269005385 domain linker motif; other site 300269005386 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 300269005387 putative dimerization interface [polypeptide binding]; other site 300269005388 putative ligand binding site [chemical binding]; other site 300269005389 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005390 beta-phosphoglucomutase; Region: bPGM; TIGR01990 300269005391 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 300269005392 motif II; other site 300269005393 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 300269005394 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 300269005395 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 300269005396 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 300269005397 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 300269005398 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 300269005399 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 300269005400 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 300269005401 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 300269005402 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 300269005403 putative NAD(P) binding site [chemical binding]; other site 300269005404 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 300269005405 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 300269005406 dimer interface [polypeptide binding]; other site 300269005407 conserved gate region; other site 300269005408 putative PBP binding loops; other site 300269005409 ABC-ATPase subunit interface; other site 300269005410 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 300269005411 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 300269005412 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 300269005413 active site residue [active] 300269005414 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 300269005415 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 300269005416 phage shock protein C; Region: phageshock_pspC; TIGR02978 300269005417 phage shock protein B; Provisional; Region: pspB; PRK09458 300269005418 phage shock protein PspA; Provisional; Region: PRK10698 300269005419 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 300269005420 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 300269005421 Walker A motif; other site 300269005422 ATP binding site [chemical binding]; other site 300269005423 Walker B motif; other site 300269005424 arginine finger; other site 300269005425 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 300269005426 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 300269005427 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 300269005428 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 300269005429 NAD(P) binding site [chemical binding]; other site 300269005430 catalytic residues [active] 300269005431 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 300269005432 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 300269005433 non-specific DNA binding site [nucleotide binding]; other site 300269005434 salt bridge; other site 300269005435 sequence-specific DNA binding site [nucleotide binding]; other site 300269005436 Cupin domain; Region: Cupin_2; pfam07883 300269005437 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 300269005438 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 300269005439 catalytic triad [active] 300269005440 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 300269005441 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 300269005442 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 300269005443 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 300269005444 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 300269005445 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 300269005446 peptide binding site [polypeptide binding]; other site 300269005447 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 300269005448 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 300269005449 dimer interface [polypeptide binding]; other site 300269005450 conserved gate region; other site 300269005451 putative PBP binding loops; other site 300269005452 ABC-ATPase subunit interface; other site 300269005453 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 300269005454 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 300269005455 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 300269005456 dimer interface [polypeptide binding]; other site 300269005457 conserved gate region; other site 300269005458 putative PBP binding loops; other site 300269005459 ABC-ATPase subunit interface; other site 300269005460 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 300269005461 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269005462 Walker A/P-loop; other site 300269005463 ATP binding site [chemical binding]; other site 300269005464 Q-loop/lid; other site 300269005465 ABC transporter signature motif; other site 300269005466 Walker B; other site 300269005467 D-loop; other site 300269005468 H-loop/switch region; other site 300269005469 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269005470 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 300269005471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269005472 Walker A/P-loop; other site 300269005473 ATP binding site [chemical binding]; other site 300269005474 Q-loop/lid; other site 300269005475 ABC transporter signature motif; other site 300269005476 Walker B; other site 300269005477 D-loop; other site 300269005478 H-loop/switch region; other site 300269005479 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 300269005480 putative active site [active] 300269005481 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 300269005482 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 300269005483 NAD binding site [chemical binding]; other site 300269005484 homotetramer interface [polypeptide binding]; other site 300269005485 homodimer interface [polypeptide binding]; other site 300269005486 substrate binding site [chemical binding]; other site 300269005487 active site 300269005488 exoribonuclease II; Provisional; Region: PRK05054 300269005489 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 300269005490 RNB domain; Region: RNB; pfam00773 300269005491 S1 RNA binding domain; Region: S1; pfam00575 300269005492 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 300269005493 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 300269005494 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269005495 lipoprotein; Provisional; Region: PRK10540 300269005496 translation initiation factor Sui1; Validated; Region: PRK06824 300269005497 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 300269005498 putative rRNA binding site [nucleotide binding]; other site 300269005499 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 300269005500 active site 300269005501 dimer interface [polypeptide binding]; other site 300269005502 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 300269005503 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 300269005504 TPR motif; other site 300269005505 binding surface 300269005506 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 300269005507 binding surface 300269005508 TPR motif; other site 300269005509 Predicted membrane protein [Function unknown]; Region: COG3771 300269005510 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 300269005511 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 300269005512 active site 300269005513 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 300269005514 dimerization interface [polypeptide binding]; other site 300269005515 active site 300269005516 aconitate hydratase; Validated; Region: PRK09277 300269005517 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 300269005518 substrate binding site [chemical binding]; other site 300269005519 ligand binding site [chemical binding]; other site 300269005520 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 300269005521 substrate binding site [chemical binding]; other site 300269005522 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005523 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 300269005524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269005525 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 300269005526 substrate binding site [chemical binding]; other site 300269005527 putative dimerization interface [polypeptide binding]; other site 300269005528 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 300269005529 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 300269005530 active site 300269005531 interdomain interaction site; other site 300269005532 putative metal-binding site [ion binding]; other site 300269005533 nucleotide binding site [chemical binding]; other site 300269005534 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 300269005535 domain I; other site 300269005536 DNA binding groove [nucleotide binding] 300269005537 phosphate binding site [ion binding]; other site 300269005538 domain II; other site 300269005539 domain III; other site 300269005540 nucleotide binding site [chemical binding]; other site 300269005541 catalytic site [active] 300269005542 domain IV; other site 300269005543 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 300269005544 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 300269005545 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 300269005546 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 300269005547 hypothetical protein; Provisional; Region: PRK11037 300269005548 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 300269005549 putative inner membrane peptidase; Provisional; Region: PRK11778 300269005550 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 300269005551 tandem repeat interface [polypeptide binding]; other site 300269005552 oligomer interface [polypeptide binding]; other site 300269005553 active site residues [active] 300269005554 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 300269005555 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 300269005556 NADP binding site [chemical binding]; other site 300269005557 homodimer interface [polypeptide binding]; other site 300269005558 active site 300269005559 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 300269005560 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 300269005561 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 300269005562 homodimer interface [polypeptide binding]; other site 300269005563 Walker A motif; other site 300269005564 ATP binding site [chemical binding]; other site 300269005565 hydroxycobalamin binding site [chemical binding]; other site 300269005566 Walker B motif; other site 300269005567 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 300269005568 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 300269005569 RNA binding surface [nucleotide binding]; other site 300269005570 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 300269005571 probable active site [active] 300269005572 hypothetical protein; Provisional; Region: PRK11630 300269005573 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 300269005574 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 300269005575 active site 300269005576 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 300269005577 anthranilate synthase component I; Provisional; Region: PRK13564 300269005578 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 300269005579 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 300269005580 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 300269005581 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 300269005582 glutamine binding [chemical binding]; other site 300269005583 catalytic triad [active] 300269005584 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 300269005585 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 300269005586 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 300269005587 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 300269005588 active site 300269005589 ribulose/triose binding site [chemical binding]; other site 300269005590 phosphate binding site [ion binding]; other site 300269005591 substrate (anthranilate) binding pocket [chemical binding]; other site 300269005592 product (indole) binding pocket [chemical binding]; other site 300269005593 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 300269005594 active site 300269005595 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 300269005596 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 300269005597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269005598 catalytic residue [active] 300269005599 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 300269005600 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 300269005601 substrate binding site [chemical binding]; other site 300269005602 active site 300269005603 catalytic residues [active] 300269005604 heterodimer interface [polypeptide binding]; other site 300269005605 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005606 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 300269005607 Methyltransferase domain; Region: Methyltransf_31; pfam13847 300269005608 Methyltransferase domain; Region: Methyltransf_12; pfam08242 300269005609 S-adenosylmethionine binding site [chemical binding]; other site 300269005610 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 300269005611 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 300269005612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005613 Transposase; Region: HTH_Tnp_1; pfam01527 300269005614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005615 Integrase core domain; Region: rve; pfam00665 300269005616 Integrase core domain; Region: rve_3; pfam13683 300269005617 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 300269005618 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 300269005619 Domain of unknown function (DUF303); Region: DUF303; pfam03629 300269005620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005621 Transposase; Region: HTH_Tnp_1; pfam01527 300269005622 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005623 Integrase core domain; Region: rve; pfam00665 300269005624 Integrase core domain; Region: rve_3; pfam13683 300269005625 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 300269005626 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 300269005627 DNA methylase; Region: N6_N4_Mtase; pfam01555 300269005628 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 300269005629 Antitermination protein; Region: Antiterm; pfam03589 300269005630 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 300269005631 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 300269005632 Protein of unknown function (DUF968); Region: DUF968; pfam06147 300269005633 Hok/gef family; Region: HOK_GEF; pfam01848 300269005634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005635 Integrase core domain; Region: rve; pfam00665 300269005636 Integrase core domain; Region: rve_3; pfam13683 300269005637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005638 Transposase; Region: HTH_Tnp_1; pfam01527 300269005639 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005640 outer membrane protein W; Provisional; Region: PRK10959 300269005641 hypothetical protein; Provisional; Region: PRK02868 300269005642 intracellular septation protein A; Reviewed; Region: PRK00259 300269005643 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 300269005644 transport protein TonB; Provisional; Region: PRK10819 300269005645 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 300269005646 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 300269005647 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 300269005648 catalytic residues [active] 300269005649 catalytic nucleophile [active] 300269005650 Recombinase; Region: Recombinase; pfam07508 300269005651 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 300269005652 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269005653 HTH-like domain; Region: HTH_21; pfam13276 300269005654 Integrase core domain; Region: rve; pfam00665 300269005655 Integrase core domain; Region: rve_3; pfam13683 300269005656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005657 Integrase core domain; Region: rve; pfam00665 300269005658 Integrase core domain; Region: rve_3; pfam13683 300269005659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005660 Transposase; Region: HTH_Tnp_1; pfam01527 300269005661 Homeodomain-like domain; Region: HTH_23; pfam13384 300269005662 Winged helix-turn helix; Region: HTH_29; pfam13551 300269005663 Homeodomain-like domain; Region: HTH_32; pfam13565 300269005664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269005665 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269005666 tape measure domain; Region: tape_meas_nterm; TIGR02675 300269005667 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005668 multiple promoter invertase; Provisional; Region: mpi; PRK13413 300269005669 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 300269005670 catalytic residues [active] 300269005671 catalytic nucleophile [active] 300269005672 Presynaptic Site I dimer interface [polypeptide binding]; other site 300269005673 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 300269005674 Synaptic Flat tetramer interface [polypeptide binding]; other site 300269005675 Synaptic Site I dimer interface [polypeptide binding]; other site 300269005676 DNA binding site [nucleotide binding] 300269005677 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 300269005678 DNA-binding interface [nucleotide binding]; DNA binding site 300269005679 YciI-like protein; Reviewed; Region: PRK11370 300269005680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005681 Integrase core domain; Region: rve; pfam00665 300269005682 Integrase core domain; Region: rve_3; pfam13683 300269005683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005684 Transposase; Region: HTH_Tnp_1; pfam01527 300269005685 voltage-gated potassium channel; Provisional; Region: PRK10537 300269005686 Ion channel; Region: Ion_trans_2; pfam07885 300269005687 TrkA-N domain; Region: TrkA_N; pfam02254 300269005688 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 300269005689 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 300269005690 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 300269005691 putative active site [active] 300269005692 catalytic site [active] 300269005693 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 300269005694 putative active site [active] 300269005695 catalytic site [active] 300269005696 dsDNA-mimic protein; Reviewed; Region: PRK05094 300269005697 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 300269005698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269005699 Walker A/P-loop; other site 300269005700 ATP binding site [chemical binding]; other site 300269005701 Q-loop/lid; other site 300269005702 ABC transporter signature motif; other site 300269005703 Walker B; other site 300269005704 D-loop; other site 300269005705 H-loop/switch region; other site 300269005706 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 300269005707 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 300269005708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269005709 Walker A/P-loop; other site 300269005710 ATP binding site [chemical binding]; other site 300269005711 Q-loop/lid; other site 300269005712 ABC transporter signature motif; other site 300269005713 Walker B; other site 300269005714 D-loop; other site 300269005715 H-loop/switch region; other site 300269005716 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 300269005717 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 300269005718 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 300269005719 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 300269005720 dimer interface [polypeptide binding]; other site 300269005721 conserved gate region; other site 300269005722 putative PBP binding loops; other site 300269005723 ABC-ATPase subunit interface; other site 300269005724 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 300269005725 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 300269005726 dimer interface [polypeptide binding]; other site 300269005727 conserved gate region; other site 300269005728 putative PBP binding loops; other site 300269005729 ABC-ATPase subunit interface; other site 300269005730 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 300269005731 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 300269005732 peptide binding site [polypeptide binding]; other site 300269005733 hypothetical protein; Provisional; Region: PRK11111 300269005734 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 300269005735 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 300269005736 putative catalytic cysteine [active] 300269005737 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 300269005738 putative active site [active] 300269005739 metal binding site [ion binding]; metal-binding site 300269005740 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269005741 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269005742 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269005743 thymidine kinase; Provisional; Region: PRK04296 300269005744 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 300269005745 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 300269005746 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 300269005747 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 300269005748 active site 300269005749 tetramer interface; other site 300269005750 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 300269005751 active site 300269005752 response regulator of RpoS; Provisional; Region: PRK10693 300269005753 phosphorylation site [posttranslational modification] 300269005754 intermolecular recognition site; other site 300269005755 dimerization interface [polypeptide binding]; other site 300269005756 hypothetical protein; Provisional; Region: PRK10279 300269005757 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 300269005758 active site 300269005759 nucleophile elbow; other site 300269005760 SEC-C motif; Region: SEC-C; pfam02810 300269005761 hypothetical protein; Provisional; Region: PRK04233 300269005762 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 300269005763 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 300269005764 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 300269005765 putative active site [active] 300269005766 putative substrate binding site [chemical binding]; other site 300269005767 putative cosubstrate binding site; other site 300269005768 catalytic site [active] 300269005769 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 300269005770 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 300269005771 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 300269005772 4Fe-4S binding domain; Region: Fer4; cl02805 300269005773 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 300269005774 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 300269005775 [4Fe-4S] binding site [ion binding]; other site 300269005776 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269005777 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269005778 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269005779 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 300269005780 molybdopterin cofactor binding site; other site 300269005781 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 300269005782 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 300269005783 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 300269005784 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 300269005785 dimerization interface [polypeptide binding]; other site 300269005786 Histidine kinase; Region: HisKA_3; pfam07730 300269005787 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 300269005788 ATP binding site [chemical binding]; other site 300269005789 Mg2+ binding site [ion binding]; other site 300269005790 G-X-G motif; other site 300269005791 transcriptional regulator NarL; Provisional; Region: PRK10651 300269005792 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 300269005793 active site 300269005794 phosphorylation site [posttranslational modification] 300269005795 intermolecular recognition site; other site 300269005796 dimerization interface [polypeptide binding]; other site 300269005797 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 300269005798 DNA binding residues [nucleotide binding] 300269005799 dimerization interface [polypeptide binding]; other site 300269005800 putative invasin; Provisional; Region: PRK10177 300269005801 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 300269005802 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 300269005803 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 300269005804 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 300269005805 putative active site pocket [active] 300269005806 dimerization interface [polypeptide binding]; other site 300269005807 putative catalytic residue [active] 300269005808 cation transport regulator; Reviewed; Region: chaB; PRK09582 300269005809 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 300269005810 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 300269005811 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 300269005812 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 300269005813 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 300269005814 hypothetical protein; Provisional; Region: PRK10278 300269005815 HemK family putative methylases; Region: hemK_fam; TIGR00536 300269005816 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 300269005817 peptide chain release factor 1; Validated; Region: prfA; PRK00591 300269005818 This domain is found in peptide chain release factors; Region: PCRF; smart00937 300269005819 RF-1 domain; Region: RF-1; pfam00472 300269005820 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 300269005821 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 300269005822 tRNA; other site 300269005823 putative tRNA binding site [nucleotide binding]; other site 300269005824 putative NADP binding site [chemical binding]; other site 300269005825 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 300269005826 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 300269005827 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 300269005828 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 300269005829 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 300269005830 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 300269005831 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 300269005832 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 300269005833 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269005834 active site 300269005835 putative transporter; Provisional; Region: PRK11660 300269005836 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 300269005837 Sulfate transporter family; Region: Sulfate_transp; pfam00916 300269005838 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 300269005839 hypothetical protein; Provisional; Region: PRK10692 300269005840 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 300269005841 putative active site [active] 300269005842 catalytic residue [active] 300269005843 GTP-binding protein YchF; Reviewed; Region: PRK09601 300269005844 YchF GTPase; Region: YchF; cd01900 300269005845 G1 box; other site 300269005846 GTP/Mg2+ binding site [chemical binding]; other site 300269005847 Switch I region; other site 300269005848 G2 box; other site 300269005849 Switch II region; other site 300269005850 G3 box; other site 300269005851 G4 box; other site 300269005852 G5 box; other site 300269005853 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 300269005854 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269005856 Integrase core domain; Region: rve; pfam00665 300269005857 Integrase core domain; Region: rve_3; pfam13683 300269005858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005859 Transposase; Region: HTH_Tnp_1; pfam01527 300269005860 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 300269005861 Flagellar protein FliS; Region: FliS; cl00654 300269005862 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 300269005863 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 300269005864 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 300269005865 active site 300269005866 Na/Ca binding site [ion binding]; other site 300269005867 catalytic site [active] 300269005868 lipoprotein; Provisional; Region: PRK10397 300269005869 putative inner membrane protein; Provisional; Region: PRK11099 300269005870 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 300269005871 CPxP motif; other site 300269005872 hypothetical protein; Provisional; Region: PRK09951 300269005873 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 300269005874 Probable transposase; Region: OrfB_IS605; pfam01385 300269005875 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 300269005876 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 300269005877 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005878 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269005879 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005880 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269005881 HTH-like domain; Region: HTH_21; pfam13276 300269005882 Integrase core domain; Region: rve; pfam00665 300269005883 Integrase core domain; Region: rve_3; pfam13683 300269005884 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269005885 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 300269005886 substrate binding site [chemical binding]; other site 300269005887 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 300269005888 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 300269005889 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 300269005890 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 300269005891 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 300269005892 flagellar motor switch protein FliG; Region: fliG; TIGR00207 300269005893 FliG C-terminal domain; Region: FliG_C; pfam01706 300269005894 flagellar assembly protein H; Validated; Region: fliH; PRK05687 300269005895 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 300269005896 Flagellar assembly protein FliH; Region: FliH; pfam02108 300269005897 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 300269005898 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 300269005899 Walker A motif/ATP binding site; other site 300269005900 Walker B motif; other site 300269005901 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 300269005902 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 300269005903 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 300269005904 flagellar hook-length control protein; Provisional; Region: PRK10118 300269005905 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 300269005906 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 300269005907 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 300269005908 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 300269005909 flagellar motor switch protein; Validated; Region: fliN; PRK05698 300269005910 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 300269005911 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 300269005912 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 300269005913 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 300269005914 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 300269005915 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 300269005916 DNA binding residues [nucleotide binding] 300269005917 dimerization interface [polypeptide binding]; other site 300269005918 hypothetical protein; Provisional; Region: PRK10708 300269005919 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 300269005920 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 300269005921 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 300269005922 active site 300269005923 motif I; other site 300269005924 motif II; other site 300269005925 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 300269005926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269005927 metal binding site [ion binding]; metal-binding site 300269005928 active site 300269005929 I-site; other site 300269005930 Uncharacterized small protein [Function unknown]; Region: COG5475 300269005931 hypothetical protein; Provisional; Region: PRK10062 300269005932 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 300269005933 additional DNA contacts [nucleotide binding]; other site 300269005934 mismatch recognition site; other site 300269005935 active site 300269005936 zinc binding site [ion binding]; other site 300269005937 DNA intercalation site [nucleotide binding]; other site 300269005938 DNA cytosine methylase; Provisional; Region: PRK10458 300269005939 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 300269005940 cofactor binding site; other site 300269005941 DNA binding site [nucleotide binding] 300269005942 substrate interaction site [chemical binding]; other site 300269005943 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 300269005944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 300269005945 Zn2+ binding site [ion binding]; other site 300269005946 Mg2+ binding site [ion binding]; other site 300269005947 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 300269005948 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269005949 chaperone protein HchA; Provisional; Region: PRK04155 300269005950 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 300269005951 dimer interface [polypeptide binding]; other site 300269005952 metal binding site [ion binding]; metal-binding site 300269005953 potential oxyanion hole; other site 300269005954 potential catalytic triad [active] 300269005955 conserved cys residue [active] 300269005956 Transposase; Region: HTH_Tnp_1; cl17663 300269005957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269005958 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269005959 HTH-like domain; Region: HTH_21; pfam13276 300269005960 Integrase core domain; Region: rve; pfam00665 300269005961 Integrase core domain; Region: rve_3; pfam13683 300269005962 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 300269005963 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 300269005964 dimer interface [polypeptide binding]; other site 300269005965 phosphorylation site [posttranslational modification] 300269005966 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 300269005967 ATP binding site [chemical binding]; other site 300269005968 Mg2+ binding site [ion binding]; other site 300269005969 G-X-G motif; other site 300269005970 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 300269005971 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 300269005972 active site 300269005973 phosphorylation site [posttranslational modification] 300269005974 intermolecular recognition site; other site 300269005975 dimerization interface [polypeptide binding]; other site 300269005976 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 300269005977 DNA binding site [nucleotide binding] 300269005978 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269005979 HTH-like domain; Region: HTH_21; pfam13276 300269005980 Integrase core domain; Region: rve; pfam00665 300269005981 Integrase core domain; Region: rve_3; pfam13683 300269005982 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 300269005983 active site 300269005984 homotetramer interface [polypeptide binding]; other site 300269005985 TMAO/DMSO reductase; Reviewed; Region: PRK05363 300269005986 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 300269005987 Moco binding site; other site 300269005988 metal coordination site [ion binding]; other site 300269005989 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 300269005990 zinc/cadmium-binding protein; Provisional; Region: PRK10306 300269005991 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 300269005992 putative transposase OrfB; Reviewed; Region: PHA02517 300269005993 HTH-like domain; Region: HTH_21; pfam13276 300269005994 Integrase core domain; Region: rve; pfam00665 300269005995 Integrase core domain; Region: rve_3; pfam13683 300269005996 Homeodomain-like domain; Region: HTH_23; pfam13384 300269005997 Winged helix-turn helix; Region: HTH_29; pfam13551 300269005998 Homeodomain-like domain; Region: HTH_32; pfam13565 300269005999 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269006000 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269006001 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 300269006002 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 300269006003 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006004 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 300269006005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269006006 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 300269006007 putative substrate binding site [chemical binding]; other site 300269006008 dimerization interface [polypeptide binding]; other site 300269006009 MATE family multidrug exporter; Provisional; Region: PRK10189 300269006010 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 300269006011 hypothetical protein; Provisional; Region: PRK12378 300269006012 AMP nucleosidase; Provisional; Region: PRK08292 300269006013 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 300269006014 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 300269006015 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006016 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 300269006017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269006018 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 300269006019 putative dimerization interface [polypeptide binding]; other site 300269006020 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 300269006021 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 300269006022 putative dimer interface [polypeptide binding]; other site 300269006023 active site pocket [active] 300269006024 putative cataytic base [active] 300269006025 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 300269006026 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 300269006027 homotrimer interface [polypeptide binding]; other site 300269006028 Walker A motif; other site 300269006029 GTP binding site [chemical binding]; other site 300269006030 Walker B motif; other site 300269006031 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 300269006032 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 300269006033 Sensory domain found in PocR; Region: PocR; pfam10114 300269006034 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 300269006035 amphipathic channel; other site 300269006036 Asn-Pro-Ala signature motifs; other site 300269006037 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 300269006038 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 300269006039 Hexamer interface [polypeptide binding]; other site 300269006040 Putative hexagonal pore residue; other site 300269006041 propanediol utilization protein PduB; Provisional; Region: PRK15415 300269006042 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 300269006043 putative hexamer interface [polypeptide binding]; other site 300269006044 putative hexagonal pore; other site 300269006045 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 300269006046 putative hexamer interface [polypeptide binding]; other site 300269006047 putative hexagonal pore; other site 300269006048 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 300269006049 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 300269006050 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 300269006051 alpha-beta subunit interface [polypeptide binding]; other site 300269006052 alpha-gamma subunit interface [polypeptide binding]; other site 300269006053 active site 300269006054 substrate and K+ binding site; other site 300269006055 K+ binding site [ion binding]; other site 300269006056 cobalamin binding site [chemical binding]; other site 300269006057 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 300269006058 Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduE; COG4910 300269006059 Cell division protein FtsA; Region: FtsA; cl17206 300269006060 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 300269006061 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 300269006062 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 300269006063 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 300269006064 Hexamer interface [polypeptide binding]; other site 300269006065 Putative hexagonal pore residue; other site 300269006066 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 300269006067 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 300269006068 Hexamer interface [polypeptide binding]; other site 300269006069 Hexagonal pore residue; other site 300269006070 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 300269006071 Propanediol utilisation protein PduL; Region: PduL; pfam06130 300269006072 Propanediol utilisation protein PduL; Region: PduL; pfam06130 300269006073 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 300269006074 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 300269006075 Hexamer/Pentamer interface [polypeptide binding]; other site 300269006076 central pore; other site 300269006077 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 300269006078 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 300269006079 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 300269006080 putative catalytic cysteine [active] 300269006081 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 300269006082 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 300269006083 putative active site [active] 300269006084 metal binding site [ion binding]; metal-binding site 300269006085 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 300269006086 SLBB domain; Region: SLBB; pfam10531 300269006087 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 300269006088 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 300269006089 putative hexamer interface [polypeptide binding]; other site 300269006090 putative hexagonal pore; other site 300269006091 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 300269006092 putative hexamer interface [polypeptide binding]; other site 300269006093 putative hexagonal pore; other site 300269006094 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 300269006095 putative hexamer interface [polypeptide binding]; other site 300269006096 putative hexagonal pore; other site 300269006097 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 300269006098 G1 box; other site 300269006099 GTP/Mg2+ binding site [chemical binding]; other site 300269006100 G2 box; other site 300269006101 G3 box; other site 300269006102 Switch II region; other site 300269006103 G4 box; other site 300269006104 G5 box; other site 300269006105 hypothetical protein; Provisional; Region: PRK05423 300269006106 Predicted membrane protein [Function unknown]; Region: COG1289 300269006107 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269006108 DNA gyrase inhibitor; Provisional; Region: PRK10016 300269006109 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 300269006110 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 300269006111 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 300269006112 exonuclease I; Provisional; Region: sbcB; PRK11779 300269006113 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 300269006114 active site 300269006115 catalytic site [active] 300269006116 substrate binding site [chemical binding]; other site 300269006117 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 300269006118 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 300269006119 CPxP motif; other site 300269006120 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 300269006121 Sulphur transport; Region: Sulf_transp; pfam04143 300269006122 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 300269006123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269006124 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 300269006125 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 300269006126 dimerization interface [polypeptide binding]; other site 300269006127 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 300269006128 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 300269006129 putative NAD(P) binding site [chemical binding]; other site 300269006130 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 300269006131 antitoxin YefM; Provisional; Region: PRK11409 300269006132 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 300269006133 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 300269006134 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 300269006135 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 300269006136 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 300269006137 NAD binding site [chemical binding]; other site 300269006138 dimerization interface [polypeptide binding]; other site 300269006139 product binding site; other site 300269006140 substrate binding site [chemical binding]; other site 300269006141 zinc binding site [ion binding]; other site 300269006142 catalytic residues [active] 300269006143 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 300269006144 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 300269006145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269006146 homodimer interface [polypeptide binding]; other site 300269006147 catalytic residue [active] 300269006148 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 300269006149 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 300269006150 active site 300269006151 motif I; other site 300269006152 motif II; other site 300269006153 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 300269006154 putative active site pocket [active] 300269006155 4-fold oligomerization interface [polypeptide binding]; other site 300269006156 metal binding residues [ion binding]; metal-binding site 300269006157 3-fold/trimer interface [polypeptide binding]; other site 300269006158 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 300269006159 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 300269006160 putative active site [active] 300269006161 oxyanion strand; other site 300269006162 catalytic triad [active] 300269006163 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 300269006164 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 300269006165 catalytic residues [active] 300269006166 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 300269006167 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 300269006168 substrate binding site [chemical binding]; other site 300269006169 glutamase interaction surface [polypeptide binding]; other site 300269006170 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 300269006171 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 300269006172 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 300269006173 metal binding site [ion binding]; metal-binding site 300269006174 chain length determinant protein WzzB; Provisional; Region: PRK15471 300269006175 Chain length determinant protein; Region: Wzz; pfam02706 300269006176 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 300269006177 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 300269006178 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 300269006179 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 300269006180 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 300269006181 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 300269006182 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 300269006183 phosphomannomutase CpsG; Provisional; Region: PRK15414 300269006184 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 300269006185 active site 300269006186 substrate binding site [chemical binding]; other site 300269006187 metal binding site [ion binding]; metal-binding site 300269006188 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 300269006189 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 300269006190 Substrate binding site; other site 300269006191 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 300269006192 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 300269006193 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 300269006194 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 300269006195 active site 300269006196 GDP-Mannose binding site [chemical binding]; other site 300269006197 dimer interface [polypeptide binding]; other site 300269006198 modified nudix motif 300269006199 metal binding site [ion binding]; metal-binding site 300269006200 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 300269006201 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 300269006202 NADP binding site [chemical binding]; other site 300269006203 active site 300269006204 putative substrate binding site [chemical binding]; other site 300269006205 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 300269006206 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 300269006207 NADP-binding site; other site 300269006208 homotetramer interface [polypeptide binding]; other site 300269006209 substrate binding site [chemical binding]; other site 300269006210 homodimer interface [polypeptide binding]; other site 300269006211 active site 300269006212 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 300269006213 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 300269006214 putative trimer interface [polypeptide binding]; other site 300269006215 putative active site [active] 300269006216 putative substrate binding site [chemical binding]; other site 300269006217 putative CoA binding site [chemical binding]; other site 300269006218 putative glycosyl transferase; Provisional; Region: PRK10063 300269006219 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 300269006220 metal-binding site 300269006221 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 300269006222 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 300269006223 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 300269006224 putative acyl transferase; Provisional; Region: PRK10191 300269006225 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 300269006226 trimer interface [polypeptide binding]; other site 300269006227 active site 300269006228 substrate binding site [chemical binding]; other site 300269006229 CoA binding site [chemical binding]; other site 300269006230 putative glycosyl transferase; Provisional; Region: PRK10018 300269006231 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 300269006232 active site 300269006233 tyrosine kinase; Provisional; Region: PRK11519 300269006234 Chain length determinant protein; Region: Wzz; pfam02706 300269006235 Chain length determinant protein; Region: Wzz; cl15801 300269006236 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 300269006237 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 300269006238 Low molecular weight phosphatase family; Region: LMWPc; cd00115 300269006239 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 300269006240 active site 300269006241 polysaccharide export protein Wza; Provisional; Region: PRK15078 300269006242 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 300269006243 SLBB domain; Region: SLBB; pfam10531 300269006244 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 300269006245 FOG: CBS domain [General function prediction only]; Region: COG0517 300269006246 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 300269006247 Transporter associated domain; Region: CorC_HlyC; smart01091 300269006248 putative assembly protein; Provisional; Region: PRK10833 300269006249 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 300269006250 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 300269006251 trimer interface [polypeptide binding]; other site 300269006252 active site 300269006253 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 300269006254 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 300269006255 ATP-binding site [chemical binding]; other site 300269006256 Sugar specificity; other site 300269006257 Pyrimidine base specificity; other site 300269006258 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 300269006259 putative diguanylate cyclase; Provisional; Region: PRK09776 300269006260 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 300269006261 putative active site [active] 300269006262 heme pocket [chemical binding]; other site 300269006263 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 300269006264 putative active site [active] 300269006265 heme pocket [chemical binding]; other site 300269006266 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 300269006267 putative active site [active] 300269006268 heme pocket [chemical binding]; other site 300269006269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269006270 metal binding site [ion binding]; metal-binding site 300269006271 active site 300269006272 I-site; other site 300269006273 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 300269006274 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 300269006275 AlkA N-terminal domain; Region: AlkA_N; smart01009 300269006276 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 300269006277 minor groove reading motif; other site 300269006278 helix-hairpin-helix signature motif; other site 300269006279 substrate binding pocket [chemical binding]; other site 300269006280 active site 300269006281 putative chaperone; Provisional; Region: PRK11678 300269006282 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 300269006283 nucleotide binding site [chemical binding]; other site 300269006284 putative NEF/HSP70 interaction site [polypeptide binding]; other site 300269006285 SBD interface [polypeptide binding]; other site 300269006286 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 300269006287 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 300269006288 substrate binding site [chemical binding]; other site 300269006289 activation loop (A-loop); other site 300269006290 Y-family of DNA polymerases; Region: PolY; cl12025 300269006291 Protein phosphatase 2C; Region: PP2C_2; pfam13672 300269006292 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 300269006293 metal ion-dependent adhesion site (MIDAS); other site 300269006294 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 300269006295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269006296 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269006297 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 300269006298 Protein export membrane protein; Region: SecD_SecF; cl14618 300269006299 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 300269006300 putative transporter; Provisional; Region: PRK10504 300269006301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006302 putative substrate translocation pore; other site 300269006303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006304 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 300269006305 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 300269006306 dimerization interface [polypeptide binding]; other site 300269006307 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 300269006308 dimer interface [polypeptide binding]; other site 300269006309 phosphorylation site [posttranslational modification] 300269006310 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 300269006311 ATP binding site [chemical binding]; other site 300269006312 Mg2+ binding site [ion binding]; other site 300269006313 G-X-G motif; other site 300269006314 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 300269006315 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 300269006316 active site 300269006317 phosphorylation site [posttranslational modification] 300269006318 intermolecular recognition site; other site 300269006319 dimerization interface [polypeptide binding]; other site 300269006320 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 300269006321 DNA binding site [nucleotide binding] 300269006322 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269006323 Uncharacterized conserved protein [Function unknown]; Region: COG3422 300269006324 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 300269006325 putative protease; Provisional; Region: PRK15452 300269006326 Peptidase family U32; Region: Peptidase_U32; pfam01136 300269006327 lipid kinase; Reviewed; Region: PRK13054 300269006328 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 300269006329 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 300269006330 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 300269006331 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269006332 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 300269006333 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 300269006334 putative NAD(P) binding site [chemical binding]; other site 300269006335 catalytic Zn binding site [ion binding]; other site 300269006336 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 300269006337 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 300269006338 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 300269006339 active site 300269006340 P-loop; other site 300269006341 phosphorylation site [posttranslational modification] 300269006342 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006343 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 300269006344 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 300269006345 intersubunit interface [polypeptide binding]; other site 300269006346 active site 300269006347 zinc binding site [ion binding]; other site 300269006348 Na+ binding site [ion binding]; other site 300269006349 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 300269006350 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 300269006351 putative active site; other site 300269006352 catalytic residue [active] 300269006353 nucleoside transporter; Region: 2A0110; TIGR00889 300269006354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006355 putative substrate translocation pore; other site 300269006356 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 300269006357 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269006358 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 300269006359 substrate binding site [chemical binding]; other site 300269006360 ATP binding site [chemical binding]; other site 300269006361 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 300269006362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269006363 DNA-binding site [nucleotide binding]; DNA binding site 300269006364 UTRA domain; Region: UTRA; pfam07702 300269006365 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 300269006366 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 300269006367 active site 300269006368 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 300269006369 dimer interface [polypeptide binding]; other site 300269006370 substrate binding site [chemical binding]; other site 300269006371 ATP binding site [chemical binding]; other site 300269006372 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 300269006373 substrate binding site [chemical binding]; other site 300269006374 multimerization interface [polypeptide binding]; other site 300269006375 ATP binding site [chemical binding]; other site 300269006376 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 300269006377 putative metal binding site [ion binding]; other site 300269006378 putative homodimer interface [polypeptide binding]; other site 300269006379 putative homotetramer interface [polypeptide binding]; other site 300269006380 putative homodimer-homodimer interface [polypeptide binding]; other site 300269006381 putative allosteric switch controlling residues; other site 300269006382 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 300269006383 Predicted integral membrane protein [Function unknown]; Region: COG5455 300269006384 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 300269006385 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 300269006386 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269006387 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 300269006388 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269006389 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269006390 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 300269006391 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 300269006392 antiporter inner membrane protein; Provisional; Region: PRK11670 300269006393 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 300269006394 Walker A motif; other site 300269006395 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 300269006396 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 300269006397 active site 300269006398 HIGH motif; other site 300269006399 KMSKS motif; other site 300269006400 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 300269006401 tRNA binding surface [nucleotide binding]; other site 300269006402 anticodon binding site; other site 300269006403 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 300269006404 dimer interface [polypeptide binding]; other site 300269006405 putative tRNA-binding site [nucleotide binding]; other site 300269006406 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 300269006407 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 300269006409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 300269006410 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 300269006411 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 300269006412 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 300269006413 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 300269006414 active site 300269006415 phosphorylation site [posttranslational modification] 300269006416 intermolecular recognition site; other site 300269006417 dimerization interface [polypeptide binding]; other site 300269006418 LytTr DNA-binding domain; Region: LytTR; pfam04397 300269006419 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 300269006420 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 300269006421 GAF domain; Region: GAF; pfam01590 300269006422 Histidine kinase; Region: His_kinase; pfam06580 300269006423 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 300269006424 ATP binding site [chemical binding]; other site 300269006425 Mg2+ binding site [ion binding]; other site 300269006426 G-X-G motif; other site 300269006427 DinI-like family; Region: DinI; pfam06183 300269006428 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006429 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269006430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269006431 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269006432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269006433 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269006434 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 300269006435 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 300269006436 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269006437 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 300269006438 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269006439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269006440 Transposase; Region: HTH_Tnp_1; pfam01527 300269006441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269006442 Integrase core domain; Region: rve; pfam00665 300269006443 Integrase core domain; Region: rve_3; pfam13683 300269006444 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 300269006445 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 300269006446 Int/Topo IB signature motif; other site 300269006447 transcriptional regulator MirA; Provisional; Region: PRK15043 300269006448 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 300269006449 hypothetical protein; Provisional; Region: PRK13681 300269006450 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 300269006451 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 300269006452 dimer interface [polypeptide binding]; other site 300269006453 conserved gate region; other site 300269006454 putative PBP binding loops; other site 300269006455 ABC-ATPase subunit interface; other site 300269006456 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 300269006457 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 300269006458 Walker A/P-loop; other site 300269006459 ATP binding site [chemical binding]; other site 300269006460 Q-loop/lid; other site 300269006461 ABC transporter signature motif; other site 300269006462 Walker B; other site 300269006463 D-loop; other site 300269006464 H-loop/switch region; other site 300269006465 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 300269006466 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 300269006467 dimer interface [polypeptide binding]; other site 300269006468 conserved gate region; other site 300269006469 ABC-ATPase subunit interface; other site 300269006470 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 300269006471 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 300269006472 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 300269006473 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 300269006474 D-lactate dehydrogenase; Provisional; Region: PRK11183 300269006475 FAD binding domain; Region: FAD_binding_4; pfam01565 300269006476 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 300269006477 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 300269006478 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 300269006479 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 300269006480 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 300269006481 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 300269006482 oxidoreductase; Provisional; Region: PRK12743 300269006483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 300269006484 NAD(P) binding site [chemical binding]; other site 300269006485 active site 300269006486 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 300269006487 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 300269006488 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 300269006489 FMN binding site [chemical binding]; other site 300269006490 active site 300269006491 catalytic residues [active] 300269006492 substrate binding site [chemical binding]; other site 300269006493 hypothetical protein; Provisional; Region: PRK01821 300269006494 hypothetical protein; Provisional; Region: PRK10711 300269006495 cytidine deaminase; Provisional; Region: PRK09027 300269006496 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 300269006497 active site 300269006498 catalytic motif [active] 300269006499 Zn binding site [ion binding]; other site 300269006500 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 300269006501 active site 300269006502 catalytic motif [active] 300269006503 Zn binding site [ion binding]; other site 300269006504 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 300269006505 putative active site [active] 300269006506 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 300269006507 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 300269006508 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 300269006509 homodimer interface [polypeptide binding]; other site 300269006510 active site 300269006511 FMN binding site [chemical binding]; other site 300269006512 substrate binding site [chemical binding]; other site 300269006513 4Fe-4S binding domain; Region: Fer4; pfam00037 300269006514 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269006515 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 300269006516 TM-ABC transporter signature motif; other site 300269006517 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 300269006518 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 300269006519 Walker A/P-loop; other site 300269006520 ATP binding site [chemical binding]; other site 300269006521 Q-loop/lid; other site 300269006522 ABC transporter signature motif; other site 300269006523 Walker B; other site 300269006524 D-loop; other site 300269006525 H-loop/switch region; other site 300269006526 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 300269006527 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 300269006528 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 300269006529 ligand binding site [chemical binding]; other site 300269006530 calcium binding site [ion binding]; other site 300269006531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 300269006532 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 300269006533 dimerization interface (closed form) [polypeptide binding]; other site 300269006534 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 300269006535 ligand binding site [chemical binding]; other site 300269006536 Predicted membrane protein [Function unknown]; Region: COG2311 300269006537 hypothetical protein; Provisional; Region: PRK10835 300269006538 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 300269006539 homodecamer interface [polypeptide binding]; other site 300269006540 GTP cyclohydrolase I; Provisional; Region: PLN03044 300269006541 active site 300269006542 putative catalytic site residues [active] 300269006543 zinc binding site [ion binding]; other site 300269006544 GTP-CH-I/GFRP interaction surface; other site 300269006545 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 300269006546 S-formylglutathione hydrolase; Region: PLN02442 300269006547 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 300269006548 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 300269006549 N-terminal plug; other site 300269006550 ligand-binding site [chemical binding]; other site 300269006551 lysine transporter; Provisional; Region: PRK10836 300269006552 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 300269006553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269006554 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 300269006555 putative dimerization interface [polypeptide binding]; other site 300269006556 conserved hypothetical integral membrane protein; Region: TIGR00698 300269006557 endonuclease IV; Provisional; Region: PRK01060 300269006558 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 300269006559 AP (apurinic/apyrimidinic) site pocket; other site 300269006560 DNA interaction; other site 300269006561 Metal-binding active site; metal-binding site 300269006562 putative kinase; Provisional; Region: PRK09954 300269006563 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 300269006564 putative DNA binding site [nucleotide binding]; other site 300269006565 putative Zn2+ binding site [ion binding]; other site 300269006566 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 300269006567 substrate binding site [chemical binding]; other site 300269006568 ATP binding site [chemical binding]; other site 300269006569 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 300269006570 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 300269006571 Nucleoside recognition; Region: Gate; pfam07670 300269006572 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 300269006573 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 300269006574 active site 300269006575 tetramer interface [polypeptide binding]; other site 300269006576 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 300269006577 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 300269006578 ligand binding site [chemical binding]; other site 300269006579 flexible hinge region; other site 300269006580 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 300269006581 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 300269006582 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 300269006583 Nucleoside recognition; Region: Gate; pfam07670 300269006584 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 300269006585 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 300269006586 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 300269006587 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269006588 substrate binding site [chemical binding]; other site 300269006589 ATP binding site [chemical binding]; other site 300269006590 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 300269006591 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 300269006592 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 300269006593 active site 300269006594 P-loop; other site 300269006595 phosphorylation site [posttranslational modification] 300269006596 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 300269006597 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 300269006598 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 300269006599 putative substrate binding site [chemical binding]; other site 300269006600 putative ATP binding site [chemical binding]; other site 300269006601 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 300269006602 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 300269006603 active site 300269006604 phosphorylation site [posttranslational modification] 300269006605 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 300269006606 dimerization domain swap beta strand [polypeptide binding]; other site 300269006607 regulatory protein interface [polypeptide binding]; other site 300269006608 active site 300269006609 regulatory phosphorylation site [posttranslational modification]; other site 300269006610 sugar efflux transporter B; Provisional; Region: PRK15011 300269006611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006612 putative substrate translocation pore; other site 300269006613 elongation factor P; Provisional; Region: PRK04542 300269006614 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 300269006615 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 300269006616 RNA binding site [nucleotide binding]; other site 300269006617 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 300269006618 RNA binding site [nucleotide binding]; other site 300269006619 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 300269006620 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 300269006621 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 300269006622 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 300269006623 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 300269006624 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 300269006625 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 300269006626 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 300269006627 active site 300269006628 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 300269006629 NlpC/P60 family; Region: NLPC_P60; pfam00877 300269006630 phage resistance protein; Provisional; Region: PRK10551 300269006631 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 300269006632 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 300269006633 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 300269006634 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 300269006635 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 300269006636 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 300269006637 dimer interface [polypeptide binding]; other site 300269006638 conserved gate region; other site 300269006639 putative PBP binding loops; other site 300269006640 ABC-ATPase subunit interface; other site 300269006641 microcin C ABC transporter permease; Provisional; Region: PRK15021 300269006642 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 300269006643 dimer interface [polypeptide binding]; other site 300269006644 conserved gate region; other site 300269006645 ABC-ATPase subunit interface; other site 300269006646 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 300269006647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269006648 Walker A/P-loop; other site 300269006649 ATP binding site [chemical binding]; other site 300269006650 Q-loop/lid; other site 300269006651 ABC transporter signature motif; other site 300269006652 Walker B; other site 300269006653 D-loop; other site 300269006654 H-loop/switch region; other site 300269006655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269006656 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269006657 Walker A/P-loop; other site 300269006658 ATP binding site [chemical binding]; other site 300269006659 Q-loop/lid; other site 300269006660 ABC transporter signature motif; other site 300269006661 Walker B; other site 300269006662 D-loop; other site 300269006663 H-loop/switch region; other site 300269006664 hypothetical protein; Provisional; Region: PRK11835 300269006665 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 300269006666 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 300269006667 RNA binding surface [nucleotide binding]; other site 300269006668 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 300269006669 active site 300269006670 uracil binding [chemical binding]; other site 300269006671 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 300269006672 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 300269006673 ATP binding site [chemical binding]; other site 300269006674 putative Mg++ binding site [ion binding]; other site 300269006675 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 300269006676 nucleotide binding region [chemical binding]; other site 300269006677 ATP-binding site [chemical binding]; other site 300269006678 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 300269006679 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 300269006680 5S rRNA interface [nucleotide binding]; other site 300269006681 CTC domain interface [polypeptide binding]; other site 300269006682 L16 interface [polypeptide binding]; other site 300269006683 Nucleoid-associated protein [General function prediction only]; Region: COG3081 300269006684 nucleoid-associated protein NdpA; Validated; Region: PRK00378 300269006685 hypothetical protein; Provisional; Region: PRK13689 300269006686 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 300269006687 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 300269006688 Sulfatase; Region: Sulfatase; pfam00884 300269006689 Integrase core domain; Region: rve; pfam00665 300269006690 Integrase core domain; Region: rve_3; pfam13683 300269006691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269006692 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269006693 Integrase core domain; Region: rve; pfam00665 300269006694 Integrase core domain; Region: rve_3; cl15866 300269006695 transposase/IS protein; Provisional; Region: PRK09183 300269006696 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 300269006697 Walker A motif; other site 300269006698 ATP binding site [chemical binding]; other site 300269006699 Walker B motif; other site 300269006700 HTH-like domain; Region: HTH_21; pfam13276 300269006701 transcriptional regulator NarP; Provisional; Region: PRK10403 300269006702 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 300269006703 active site 300269006704 phosphorylation site [posttranslational modification] 300269006705 intermolecular recognition site; other site 300269006706 dimerization interface [polypeptide binding]; other site 300269006707 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 300269006708 DNA binding residues [nucleotide binding] 300269006709 dimerization interface [polypeptide binding]; other site 300269006710 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 300269006711 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 300269006712 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 300269006713 binding surface 300269006714 TPR motif; other site 300269006715 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 300269006716 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 300269006717 catalytic residues [active] 300269006718 central insert; other site 300269006719 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 300269006720 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 300269006721 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 300269006722 heme exporter protein CcmC; Region: ccmC; TIGR01191 300269006723 heme exporter protein CcmB; Region: ccmB; TIGR01190 300269006724 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 300269006725 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 300269006726 Walker A/P-loop; other site 300269006727 ATP binding site [chemical binding]; other site 300269006728 Q-loop/lid; other site 300269006729 ABC transporter signature motif; other site 300269006730 Walker B; other site 300269006731 D-loop; other site 300269006732 H-loop/switch region; other site 300269006733 cytochrome c-type protein NapC; Provisional; Region: PRK10617 300269006734 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 300269006735 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 300269006736 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 300269006737 4Fe-4S binding domain; Region: Fer4_5; pfam12801 300269006738 4Fe-4S binding domain; Region: Fer4; cl02805 300269006739 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 300269006740 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 300269006741 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 300269006742 [4Fe-4S] binding site [ion binding]; other site 300269006743 molybdopterin cofactor binding site; other site 300269006744 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 300269006745 molybdopterin cofactor binding site; other site 300269006746 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 300269006747 ferredoxin-type protein; Provisional; Region: PRK10194 300269006748 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 300269006749 secondary substrate binding site; other site 300269006750 primary substrate binding site; other site 300269006751 inhibition loop; other site 300269006752 dimerization interface [polypeptide binding]; other site 300269006753 malate:quinone oxidoreductase; Validated; Region: PRK05257 300269006754 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 300269006755 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 300269006756 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 300269006757 Walker A/P-loop; other site 300269006758 ATP binding site [chemical binding]; other site 300269006759 Q-loop/lid; other site 300269006760 ABC transporter signature motif; other site 300269006761 Walker B; other site 300269006762 D-loop; other site 300269006763 H-loop/switch region; other site 300269006764 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 300269006765 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 300269006766 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 300269006767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269006768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269006769 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 300269006770 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 300269006771 DNA binding site [nucleotide binding] 300269006772 active site 300269006773 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 300269006774 ApbE family; Region: ApbE; pfam02424 300269006775 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269006776 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 300269006777 trimer interface [polypeptide binding]; other site 300269006778 eyelet of channel; other site 300269006779 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006780 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 300269006781 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 300269006782 ATP binding site [chemical binding]; other site 300269006783 G-X-G motif; other site 300269006784 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 300269006785 putative binding surface; other site 300269006786 active site 300269006787 transcriptional regulator RcsB; Provisional; Region: PRK10840 300269006788 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 300269006789 active site 300269006790 phosphorylation site [posttranslational modification] 300269006791 intermolecular recognition site; other site 300269006792 dimerization interface [polypeptide binding]; other site 300269006793 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 300269006794 DNA binding residues [nucleotide binding] 300269006795 dimerization interface [polypeptide binding]; other site 300269006796 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 300269006797 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 300269006798 dimer interface [polypeptide binding]; other site 300269006799 phosphorylation site [posttranslational modification] 300269006800 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 300269006801 ATP binding site [chemical binding]; other site 300269006802 Mg2+ binding site [ion binding]; other site 300269006803 G-X-G motif; other site 300269006804 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 300269006805 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 300269006806 active site 300269006807 phosphorylation site [posttranslational modification] 300269006808 intermolecular recognition site; other site 300269006809 dimerization interface [polypeptide binding]; other site 300269006810 sensory histidine kinase AtoS; Provisional; Region: PRK11360 300269006811 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 300269006812 putative active site [active] 300269006813 heme pocket [chemical binding]; other site 300269006814 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 300269006815 dimer interface [polypeptide binding]; other site 300269006816 phosphorylation site [posttranslational modification] 300269006817 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 300269006818 ATP binding site [chemical binding]; other site 300269006819 Mg2+ binding site [ion binding]; other site 300269006820 G-X-G motif; other site 300269006821 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 300269006822 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 300269006823 active site 300269006824 phosphorylation site [posttranslational modification] 300269006825 intermolecular recognition site; other site 300269006826 dimerization interface [polypeptide binding]; other site 300269006827 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 300269006828 Walker A motif; other site 300269006829 ATP binding site [chemical binding]; other site 300269006830 Walker B motif; other site 300269006831 arginine finger; other site 300269006832 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 300269006833 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 300269006834 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 300269006835 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 300269006836 putative acyltransferase; Provisional; Region: PRK05790 300269006837 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 300269006838 dimer interface [polypeptide binding]; other site 300269006839 active site 300269006840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 300269006841 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 300269006842 Predicted secreted protein [Function unknown]; Region: COG5445 300269006843 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 300269006844 Predicted secreted protein [Function unknown]; Region: COG5445 300269006845 Stage II sporulation protein; Region: SpoIID; pfam08486 300269006846 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 300269006847 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 300269006849 DNA gyrase subunit A; Validated; Region: PRK05560 300269006850 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 300269006851 CAP-like domain; other site 300269006852 active site 300269006853 primary dimer interface [polypeptide binding]; other site 300269006854 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006855 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006856 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006857 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006858 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006859 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269006860 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 300269006861 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 300269006862 S-adenosylmethionine binding site [chemical binding]; other site 300269006863 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269006864 HTH-like domain; Region: HTH_21; pfam13276 300269006865 Integrase core domain; Region: rve; pfam00665 300269006866 Integrase core domain; Region: rve_3; pfam13683 300269006867 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 300269006868 ATP cone domain; Region: ATP-cone; pfam03477 300269006869 Class I ribonucleotide reductase; Region: RNR_I; cd01679 300269006870 active site 300269006871 dimer interface [polypeptide binding]; other site 300269006872 catalytic residues [active] 300269006873 effector binding site; other site 300269006874 R2 peptide binding site; other site 300269006875 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 300269006876 dimer interface [polypeptide binding]; other site 300269006877 putative radical transfer pathway; other site 300269006878 diiron center [ion binding]; other site 300269006879 tyrosyl radical; other site 300269006880 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 300269006881 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 300269006882 catalytic loop [active] 300269006883 iron binding site [ion binding]; other site 300269006884 hypothetical protein; Provisional; Region: PRK09902 300269006885 Integrase core domain; Region: rve; pfam00665 300269006886 Integrase core domain; Region: rve_3; pfam13683 300269006887 putative transposase OrfB; Reviewed; Region: PHA02517 300269006888 HTH-like domain; Region: HTH_21; pfam13276 300269006889 Integrase core domain; Region: rve; pfam00665 300269006890 Integrase core domain; Region: rve_3; pfam13683 300269006891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269006892 Transposase; Region: HTH_Tnp_1; pfam01527 300269006893 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 300269006894 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 300269006895 active site 300269006896 catalytic site [active] 300269006897 metal binding site [ion binding]; metal-binding site 300269006898 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 300269006899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006900 putative substrate translocation pore; other site 300269006901 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 300269006902 hydroxyglutarate oxidase; Provisional; Region: PRK11728 300269006903 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 300269006904 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 300269006905 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 300269006906 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 300269006907 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269006908 Cysteine-rich domain; Region: CCG; pfam02754 300269006909 Cysteine-rich domain; Region: CCG; pfam02754 300269006910 hypothetical protein; Provisional; Region: PRK09956 300269006911 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 300269006912 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 300269006913 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 300269006914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269006915 putative substrate translocation pore; other site 300269006916 L-rhamnonate dehydratase; Provisional; Region: PRK15440 300269006917 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 300269006918 putative active site pocket [active] 300269006919 putative metal binding site [ion binding]; other site 300269006920 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 300269006921 Transcriptional regulator [Transcription]; Region: IclR; COG1414 300269006922 Bacterial transcriptional regulator; Region: IclR; pfam01614 300269006923 hypothetical protein; Provisional; Region: PRK03673 300269006924 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 300269006925 putative MPT binding site; other site 300269006926 Competence-damaged protein; Region: CinA; cl00666 300269006927 YfaZ precursor; Region: YfaZ; pfam07437 300269006928 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 300269006929 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 300269006930 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 300269006931 catalytic core [active] 300269006932 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 300269006933 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 300269006934 inhibitor-cofactor binding pocket; inhibition site 300269006935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269006936 catalytic residue [active] 300269006937 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 300269006938 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 300269006939 Ligand binding site; other site 300269006940 Putative Catalytic site; other site 300269006941 DXD motif; other site 300269006942 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 300269006943 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 300269006944 substrate binding site [chemical binding]; other site 300269006945 cosubstrate binding site; other site 300269006946 catalytic site [active] 300269006947 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 300269006948 active site 300269006949 hexamer interface [polypeptide binding]; other site 300269006950 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 300269006951 NAD binding site [chemical binding]; other site 300269006952 substrate binding site [chemical binding]; other site 300269006953 active site 300269006954 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 300269006955 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 300269006956 putative active site [active] 300269006957 putative catalytic site [active] 300269006958 putative Zn binding site [ion binding]; other site 300269006959 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 300269006960 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 300269006961 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 300269006962 signal transduction protein PmrD; Provisional; Region: PRK15450 300269006963 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 300269006964 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 300269006965 acyl-activating enzyme (AAE) consensus motif; other site 300269006966 putative AMP binding site [chemical binding]; other site 300269006967 putative active site [active] 300269006968 putative CoA binding site [chemical binding]; other site 300269006969 O-succinylbenzoate synthase; Provisional; Region: PRK05105 300269006970 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 300269006971 active site 300269006972 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 300269006973 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 300269006974 substrate binding site [chemical binding]; other site 300269006975 oxyanion hole (OAH) forming residues; other site 300269006976 trimer interface [polypeptide binding]; other site 300269006977 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 300269006978 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 300269006979 nucleophilic elbow; other site 300269006980 catalytic triad; other site 300269006981 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 300269006982 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 300269006983 dimer interface [polypeptide binding]; other site 300269006984 tetramer interface [polypeptide binding]; other site 300269006985 PYR/PP interface [polypeptide binding]; other site 300269006986 TPP binding site [chemical binding]; other site 300269006987 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 300269006988 TPP-binding site; other site 300269006989 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 300269006990 isochorismate synthases; Region: isochor_syn; TIGR00543 300269006991 hypothetical protein; Provisional; Region: PRK10404 300269006992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269006993 Coenzyme A binding pocket [chemical binding]; other site 300269006994 ribonuclease BN; Region: true_RNase_BN; TIGR02649 300269006995 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269006996 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269006997 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 300269006998 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 300269006999 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007000 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 300269007001 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007002 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 300269007003 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 300269007004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007005 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 300269007006 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 300269007007 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 300269007008 4Fe-4S binding domain; Region: Fer4; pfam00037 300269007009 4Fe-4S binding domain; Region: Fer4; pfam00037 300269007010 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 300269007011 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 300269007012 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 300269007013 catalytic loop [active] 300269007014 iron binding site [ion binding]; other site 300269007015 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 300269007016 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 300269007017 [4Fe-4S] binding site [ion binding]; other site 300269007018 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 300269007019 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 300269007020 SLBB domain; Region: SLBB; pfam10531 300269007021 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 300269007022 NADH dehydrogenase subunit E; Validated; Region: PRK07539 300269007023 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 300269007024 putative dimer interface [polypeptide binding]; other site 300269007025 [2Fe-2S] cluster binding site [ion binding]; other site 300269007026 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 300269007027 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 300269007028 NADH dehydrogenase subunit D; Validated; Region: PRK06075 300269007029 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 300269007030 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 300269007031 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 300269007032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269007033 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 300269007034 putative dimerization interface [polypeptide binding]; other site 300269007035 aminotransferase AlaT; Validated; Region: PRK09265 300269007036 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 300269007037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269007038 homodimer interface [polypeptide binding]; other site 300269007039 catalytic residue [active] 300269007040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 300269007041 Zn2+ binding site [ion binding]; other site 300269007042 Mg2+ binding site [ion binding]; other site 300269007043 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 300269007044 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 300269007045 TrkA-C domain; Region: TrkA_C; pfam02080 300269007046 TrkA-C domain; Region: TrkA_C; pfam02080 300269007047 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 300269007048 hypothetical protein; Validated; Region: PRK05445 300269007049 hypothetical protein; Provisional; Region: PRK01816 300269007050 propionate/acetate kinase; Provisional; Region: PRK12379 300269007051 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 300269007052 phosphate acetyltransferase; Reviewed; Region: PRK05632 300269007053 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 300269007054 DRTGG domain; Region: DRTGG; pfam07085 300269007055 phosphate acetyltransferase; Region: pta; TIGR00651 300269007056 hypothetical protein; Provisional; Region: PRK11588 300269007057 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 300269007058 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 300269007059 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 300269007060 nudix motif; other site 300269007061 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 300269007062 active site 300269007063 metal binding site [ion binding]; metal-binding site 300269007064 homotetramer interface [polypeptide binding]; other site 300269007065 glutathione S-transferase; Provisional; Region: PRK15113 300269007066 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 300269007067 C-terminal domain interface [polypeptide binding]; other site 300269007068 GSH binding site (G-site) [chemical binding]; other site 300269007069 dimer interface [polypeptide binding]; other site 300269007070 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 300269007071 N-terminal domain interface [polypeptide binding]; other site 300269007072 putative dimer interface [polypeptide binding]; other site 300269007073 putative substrate binding pocket (H-site) [chemical binding]; other site 300269007074 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 300269007075 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 300269007076 C-terminal domain interface [polypeptide binding]; other site 300269007077 GSH binding site (G-site) [chemical binding]; other site 300269007078 dimer interface [polypeptide binding]; other site 300269007079 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 300269007080 N-terminal domain interface [polypeptide binding]; other site 300269007081 putative dimer interface [polypeptide binding]; other site 300269007082 active site 300269007083 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 300269007084 homooctamer interface [polypeptide binding]; other site 300269007085 active site 300269007086 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 300269007087 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 300269007088 putative NAD(P) binding site [chemical binding]; other site 300269007089 putative active site [active] 300269007090 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007091 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 300269007092 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 300269007093 Walker A/P-loop; other site 300269007094 ATP binding site [chemical binding]; other site 300269007095 Q-loop/lid; other site 300269007096 ABC transporter signature motif; other site 300269007097 Walker B; other site 300269007098 D-loop; other site 300269007099 H-loop/switch region; other site 300269007100 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 300269007101 dimer interface [polypeptide binding]; other site 300269007102 conserved gate region; other site 300269007103 putative PBP binding loops; other site 300269007104 ABC-ATPase subunit interface; other site 300269007105 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269007106 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 300269007107 dimer interface [polypeptide binding]; other site 300269007108 conserved gate region; other site 300269007109 putative PBP binding loops; other site 300269007110 ABC-ATPase subunit interface; other site 300269007111 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 300269007112 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 300269007113 substrate binding pocket [chemical binding]; other site 300269007114 membrane-bound complex binding site; other site 300269007115 hinge residues; other site 300269007116 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 300269007117 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 300269007118 substrate binding pocket [chemical binding]; other site 300269007119 membrane-bound complex binding site; other site 300269007120 hinge residues; other site 300269007121 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 300269007122 Flavoprotein; Region: Flavoprotein; pfam02441 300269007123 amidophosphoribosyltransferase; Provisional; Region: PRK09246 300269007124 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 300269007125 active site 300269007126 tetramer interface [polypeptide binding]; other site 300269007127 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269007128 active site 300269007129 colicin V production protein; Provisional; Region: PRK10845 300269007130 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 300269007131 cell division protein DedD; Provisional; Region: PRK11633 300269007132 Sporulation related domain; Region: SPOR; pfam05036 300269007133 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 300269007134 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269007135 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269007136 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 300269007137 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 300269007138 hypothetical protein; Provisional; Region: PRK10847 300269007139 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 300269007140 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 300269007141 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 300269007142 dimerization interface 3.5A [polypeptide binding]; other site 300269007143 active site 300269007144 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 300269007145 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 300269007146 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 300269007147 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 300269007148 ligand binding site [chemical binding]; other site 300269007149 NAD binding site [chemical binding]; other site 300269007150 catalytic site [active] 300269007151 homodimer interface [polypeptide binding]; other site 300269007152 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 300269007153 putative transporter; Provisional; Region: PRK12382 300269007154 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269007155 putative substrate translocation pore; other site 300269007156 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 300269007157 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 300269007158 dimer interface [polypeptide binding]; other site 300269007159 active site 300269007160 Uncharacterized conserved protein [Function unknown]; Region: COG4121 300269007161 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 300269007162 YfcL protein; Region: YfcL; pfam08891 300269007163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 300269007164 hypothetical protein; Provisional; Region: PRK10621 300269007165 Predicted permeases [General function prediction only]; Region: COG0730 300269007166 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 300269007167 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 300269007168 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 300269007169 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 300269007170 Tetramer interface [polypeptide binding]; other site 300269007171 active site 300269007172 FMN-binding site [chemical binding]; other site 300269007173 HemK family putative methylases; Region: hemK_fam; TIGR00536 300269007174 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 300269007175 S-adenosylmethionine binding site [chemical binding]; other site 300269007176 hypothetical protein; Provisional; Region: PRK04946 300269007177 Smr domain; Region: Smr; pfam01713 300269007178 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 300269007179 Fimbrial protein; Region: Fimbrial; cl01416 300269007180 Fimbrial protein; Region: Fimbrial; cl01416 300269007181 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269007182 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269007183 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 300269007184 PapC N-terminal domain; Region: PapC_N; pfam13954 300269007185 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269007186 PapC C-terminal domain; Region: PapC_C; pfam13953 300269007187 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 300269007188 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 300269007189 catalytic core [active] 300269007190 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 300269007191 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 300269007192 substrate binding site [chemical binding]; other site 300269007193 oxyanion hole (OAH) forming residues; other site 300269007194 trimer interface [polypeptide binding]; other site 300269007195 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 300269007196 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 300269007197 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 300269007198 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 300269007199 dimer interface [polypeptide binding]; other site 300269007200 active site 300269007201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 300269007202 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 300269007203 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269007204 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269007205 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007206 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 300269007207 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 300269007208 integrase; Provisional; Region: PRK09692 300269007209 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 300269007210 active site 300269007211 Int/Topo IB signature motif; other site 300269007212 Integrase core domain; Region: rve; pfam00665 300269007213 Integrase core domain; Region: rve_3; pfam13683 300269007214 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007215 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 300269007216 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 300269007217 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 300269007218 Phage Tail Collar Domain; Region: Collar; pfam07484 300269007219 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 300269007220 Phage-related protein, tail component [Function unknown]; Region: COG4733 300269007221 Putative phage tail protein; Region: Phage-tail_3; pfam13550 300269007222 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 300269007223 Fibronectin type III protein; Region: DUF3672; pfam12421 300269007224 Phage-related protein, tail component [Function unknown]; Region: COG4723 300269007225 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 300269007226 MPN+ (JAMM) motif; other site 300269007227 Zinc-binding site [ion binding]; other site 300269007228 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 300269007229 NlpC/P60 family; Region: NLPC_P60; cl17555 300269007230 Phage-related protein [Function unknown]; Region: gp18; COG4672 300269007231 Phage-related protein [Function unknown]; Region: COG4718 300269007232 Phage-related minor tail protein [Function unknown]; Region: COG5281 300269007233 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 300269007234 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 300269007235 Minor tail protein T; Region: Phage_tail_T; pfam06223 300269007236 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 300269007237 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 300269007238 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 300269007239 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 300269007240 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 300269007241 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 300269007242 DNA packaging protein FI; Region: Packaging_FI; pfam14000 300269007243 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 300269007244 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 300269007245 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 300269007246 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 300269007247 tandem repeat interface [polypeptide binding]; other site 300269007248 oligomer interface [polypeptide binding]; other site 300269007249 active site residues [active] 300269007250 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 300269007251 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 300269007252 gpW; Region: gpW; pfam02831 300269007253 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 300269007254 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 300269007255 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 300269007256 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269007257 HTH-like domain; Region: HTH_21; pfam13276 300269007258 Integrase core domain; Region: rve; pfam00665 300269007259 Integrase core domain; Region: rve_3; pfam13683 300269007260 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269007261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269007262 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 300269007263 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 300269007264 catalytic residues [active] 300269007265 Lysis protein S; Region: Lysis_S; pfam04971 300269007266 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007267 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 300269007268 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 300269007269 trimer interface [polypeptide binding]; other site 300269007270 eyelet of channel; other site 300269007271 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 300269007272 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 300269007273 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 300269007274 prophage protein NinE; Provisional; Region: PRK09689 300269007275 hypothetical protein; Provisional; Region: PRK09741 300269007276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269007277 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269007278 Integrase core domain; Region: rve; pfam00665 300269007279 Integrase core domain; Region: rve_3; cl15866 300269007280 transposase/IS protein; Provisional; Region: PRK09183 300269007281 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 300269007282 Walker A motif; other site 300269007283 ATP binding site [chemical binding]; other site 300269007284 Walker B motif; other site 300269007285 arginine finger; other site 300269007286 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007287 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 300269007288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269007289 putative substrate translocation pore; other site 300269007290 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007291 putative transposase OrfB; Reviewed; Region: PHA02517 300269007292 HTH-like domain; Region: HTH_21; pfam13276 300269007293 Integrase core domain; Region: rve; pfam00665 300269007294 Integrase core domain; Region: rve_3; pfam13683 300269007295 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269007296 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269007297 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269007298 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 300269007299 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 300269007300 substrate binding [chemical binding]; other site 300269007301 active site 300269007302 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 300269007303 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269007304 DNA binding site [nucleotide binding] 300269007305 domain linker motif; other site 300269007306 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 300269007307 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 300269007308 putative dimerization interface [polypeptide binding]; other site 300269007309 putative ligand binding site [chemical binding]; other site 300269007310 fructuronate transporter; Provisional; Region: PRK10034; cl15264 300269007311 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 300269007312 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 300269007313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 300269007314 catalytic residue [active] 300269007315 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 300269007316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269007317 putative substrate translocation pore; other site 300269007318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269007319 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 300269007320 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269007321 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269007322 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 300269007323 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 300269007324 active site 300269007325 phosphorylation site [posttranslational modification] 300269007326 intermolecular recognition site; other site 300269007327 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 300269007328 DNA binding residues [nucleotide binding] 300269007329 dimerization interface [polypeptide binding]; other site 300269007330 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 300269007331 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 300269007332 substrate binding pocket [chemical binding]; other site 300269007333 membrane-bound complex binding site; other site 300269007334 hinge residues; other site 300269007335 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 300269007336 substrate binding pocket [chemical binding]; other site 300269007337 membrane-bound complex binding site; other site 300269007338 hinge residues; other site 300269007339 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 300269007340 dimer interface [polypeptide binding]; other site 300269007341 phosphorylation site [posttranslational modification] 300269007342 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 300269007343 ATP binding site [chemical binding]; other site 300269007344 Mg2+ binding site [ion binding]; other site 300269007345 G-X-G motif; other site 300269007346 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 300269007347 active site 300269007348 phosphorylation site [posttranslational modification] 300269007349 intermolecular recognition site; other site 300269007350 dimerization interface [polypeptide binding]; other site 300269007351 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 300269007352 putative binding surface; other site 300269007353 active site 300269007354 putative CoA-transferase; Provisional; Region: PRK11430 300269007355 CoA-transferase family III; Region: CoA_transf_3; pfam02515 300269007356 putative transporter YfdV; Provisional; Region: PRK09903 300269007357 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 300269007358 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 300269007359 PYR/PP interface [polypeptide binding]; other site 300269007360 dimer interface [polypeptide binding]; other site 300269007361 TPP binding site [chemical binding]; other site 300269007362 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 300269007363 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 300269007364 TPP-binding site; other site 300269007365 dimer interface [polypeptide binding]; other site 300269007366 formyl-coenzyme A transferase; Provisional; Region: PRK05398 300269007367 CoA-transferase family III; Region: CoA_transf_3; pfam02515 300269007368 hypothetical protein; Provisional; Region: PRK10316 300269007369 YfdX protein; Region: YfdX; pfam10938 300269007370 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 300269007371 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 300269007372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 300269007373 putative acyl-acceptor binding pocket; other site 300269007374 aminotransferase; Validated; Region: PRK08175 300269007375 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 300269007376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269007377 homodimer interface [polypeptide binding]; other site 300269007378 catalytic residue [active] 300269007379 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007380 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 300269007381 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 300269007382 active site 300269007383 phosphorylation site [posttranslational modification] 300269007384 intermolecular recognition site; other site 300269007385 dimerization interface [polypeptide binding]; other site 300269007386 LytTr DNA-binding domain; Region: LytTR; pfam04397 300269007387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269007388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269007389 exoaminopeptidase; Provisional; Region: PRK09961 300269007390 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 300269007391 oligomer interface [polypeptide binding]; other site 300269007392 active site 300269007393 metal binding site [ion binding]; metal-binding site 300269007394 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 300269007395 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 300269007396 active site 300269007397 P-loop; other site 300269007398 phosphorylation site [posttranslational modification] 300269007399 glucokinase, proteobacterial type; Region: glk; TIGR00749 300269007400 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269007401 nucleotide binding site [chemical binding]; other site 300269007402 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 300269007403 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 300269007404 Cl- selectivity filter; other site 300269007405 Cl- binding residues [ion binding]; other site 300269007406 pore gating glutamate residue; other site 300269007407 dimer interface [polypeptide binding]; other site 300269007408 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 300269007409 manganese transport protein MntH; Reviewed; Region: PRK00701 300269007410 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 300269007411 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 300269007412 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 300269007413 Nucleoside recognition; Region: Gate; pfam07670 300269007414 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 300269007415 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 300269007416 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 300269007417 salt bridge; other site 300269007418 non-specific DNA binding site [nucleotide binding]; other site 300269007419 sequence-specific DNA binding site [nucleotide binding]; other site 300269007420 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 300269007421 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 300269007422 active site 300269007423 HIGH motif; other site 300269007424 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 300269007425 active site 300269007426 KMSKS motif; other site 300269007427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269007428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269007429 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 300269007430 putative dimerization interface [polypeptide binding]; other site 300269007431 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 300269007432 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 300269007433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 300269007434 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 300269007435 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 300269007436 nucleotide binding pocket [chemical binding]; other site 300269007437 K-X-D-G motif; other site 300269007438 catalytic site [active] 300269007439 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 300269007440 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 300269007441 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 300269007442 Dimer interface [polypeptide binding]; other site 300269007443 BRCT sequence motif; other site 300269007444 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 300269007445 cell division protein ZipA; Provisional; Region: PRK03427 300269007446 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 300269007447 FtsZ protein binding site [polypeptide binding]; other site 300269007448 putative sulfate transport protein CysZ; Validated; Region: PRK04949 300269007449 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 300269007450 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 300269007451 dimer interface [polypeptide binding]; other site 300269007452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269007453 catalytic residue [active] 300269007454 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 300269007455 dimerization domain swap beta strand [polypeptide binding]; other site 300269007456 regulatory protein interface [polypeptide binding]; other site 300269007457 active site 300269007458 regulatory phosphorylation site [posttranslational modification]; other site 300269007459 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 300269007460 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 300269007461 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 300269007462 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 300269007463 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 300269007464 HPr interaction site; other site 300269007465 glycerol kinase (GK) interaction site [polypeptide binding]; other site 300269007466 active site 300269007467 phosphorylation site [posttranslational modification] 300269007468 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269007469 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269007470 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269007471 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 300269007472 dimer interface [polypeptide binding]; other site 300269007473 pyridoxamine kinase; Validated; Region: PRK05756 300269007474 pyridoxal binding site [chemical binding]; other site 300269007475 ATP binding site [chemical binding]; other site 300269007476 hypothetical protein; Provisional; Region: PRK10318 300269007477 cysteine synthase B; Region: cysM; TIGR01138 300269007478 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 300269007479 dimer interface [polypeptide binding]; other site 300269007480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269007481 catalytic residue [active] 300269007482 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 300269007483 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 300269007484 Walker A/P-loop; other site 300269007485 ATP binding site [chemical binding]; other site 300269007486 Q-loop/lid; other site 300269007487 ABC transporter signature motif; other site 300269007488 Walker B; other site 300269007489 D-loop; other site 300269007490 H-loop/switch region; other site 300269007491 TOBE-like domain; Region: TOBE_3; pfam12857 300269007492 sulfate transport protein; Provisional; Region: cysT; CHL00187 300269007493 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 300269007494 dimer interface [polypeptide binding]; other site 300269007495 conserved gate region; other site 300269007496 putative PBP binding loops; other site 300269007497 ABC-ATPase subunit interface; other site 300269007498 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 300269007499 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 300269007500 dimer interface [polypeptide binding]; other site 300269007501 conserved gate region; other site 300269007502 putative PBP binding loops; other site 300269007503 ABC-ATPase subunit interface; other site 300269007504 thiosulfate transporter subunit; Provisional; Region: PRK10852 300269007505 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 300269007506 short chain dehydrogenase; Provisional; Region: PRK08226 300269007507 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 300269007508 NAD binding site [chemical binding]; other site 300269007509 homotetramer interface [polypeptide binding]; other site 300269007510 homodimer interface [polypeptide binding]; other site 300269007511 active site 300269007512 transcriptional regulator MurR; Provisional; Region: PRK15482 300269007513 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 300269007514 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 300269007515 putative active site [active] 300269007516 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 300269007517 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 300269007518 putative active site [active] 300269007519 putative periplasmic esterase; Provisional; Region: PRK03642 300269007520 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 300269007521 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 300269007522 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 300269007523 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 300269007524 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 300269007525 putative acetyltransferase; Provisional; Region: PRK03624 300269007526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269007527 Coenzyme A binding pocket [chemical binding]; other site 300269007528 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 300269007529 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 300269007530 active site 300269007531 metal binding site [ion binding]; metal-binding site 300269007532 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 300269007533 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 300269007534 transcriptional regulator EutR; Provisional; Region: PRK10130 300269007535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269007536 carboxysome structural protein EutK; Provisional; Region: PRK15466 300269007537 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 300269007538 Hexamer interface [polypeptide binding]; other site 300269007539 Hexagonal pore residue; other site 300269007540 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 300269007541 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 300269007542 putative hexamer interface [polypeptide binding]; other site 300269007543 putative hexagonal pore; other site 300269007544 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 300269007545 putative hexamer interface [polypeptide binding]; other site 300269007546 putative hexagonal pore; other site 300269007547 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 300269007548 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 300269007549 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 300269007550 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 300269007551 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 300269007552 active site 300269007553 metal binding site [ion binding]; metal-binding site 300269007554 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 300269007555 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269007556 nucleotide binding site [chemical binding]; other site 300269007557 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 300269007558 putative catalytic cysteine [active] 300269007559 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 300269007560 Hexamer/Pentamer interface [polypeptide binding]; other site 300269007561 central pore; other site 300269007562 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 300269007563 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 300269007564 Hexamer interface [polypeptide binding]; other site 300269007565 Hexagonal pore residue; other site 300269007566 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 300269007567 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 300269007568 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 300269007569 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 300269007570 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 300269007571 G1 box; other site 300269007572 GTP/Mg2+ binding site [chemical binding]; other site 300269007573 G2 box; other site 300269007574 Switch I region; other site 300269007575 G3 box; other site 300269007576 Switch II region; other site 300269007577 G4 box; other site 300269007578 G5 box; other site 300269007579 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 300269007580 putative hexamer interface [polypeptide binding]; other site 300269007581 putative hexagonal pore; other site 300269007582 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 300269007583 Malic enzyme, N-terminal domain; Region: malic; pfam00390 300269007584 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 300269007585 putative NAD(P) binding site [chemical binding]; other site 300269007586 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 300269007587 transaldolase-like protein; Provisional; Region: PTZ00411 300269007588 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 300269007589 active site 300269007590 dimer interface [polypeptide binding]; other site 300269007591 catalytic residue [active] 300269007592 transketolase; Reviewed; Region: PRK12753 300269007593 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 300269007594 TPP-binding site [chemical binding]; other site 300269007595 dimer interface [polypeptide binding]; other site 300269007596 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 300269007597 PYR/PP interface [polypeptide binding]; other site 300269007598 dimer interface [polypeptide binding]; other site 300269007599 TPP binding site [chemical binding]; other site 300269007600 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 300269007601 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 300269007602 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 300269007603 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 300269007604 dimer interface [polypeptide binding]; other site 300269007605 ADP-ribose binding site [chemical binding]; other site 300269007606 active site 300269007607 nudix motif; other site 300269007608 metal binding site [ion binding]; metal-binding site 300269007609 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 300269007610 4Fe-4S binding domain; Region: Fer4; pfam00037 300269007611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 300269007612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269007613 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 300269007614 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 300269007615 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 300269007616 dimerization interface [polypeptide binding]; other site 300269007617 Histidine kinase; Region: HisKA_3; pfam07730 300269007618 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 300269007619 ATP binding site [chemical binding]; other site 300269007620 Mg2+ binding site [ion binding]; other site 300269007621 G-X-G motif; other site 300269007622 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 300269007623 Protein export membrane protein; Region: SecD_SecF; cl14618 300269007624 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 300269007625 ArsC family; Region: ArsC; pfam03960 300269007626 putative catalytic residues [active] 300269007627 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 300269007628 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 300269007629 metal binding site [ion binding]; metal-binding site 300269007630 dimer interface [polypeptide binding]; other site 300269007631 hypothetical protein; Provisional; Region: PRK13664 300269007632 putative hydrolase; Provisional; Region: PRK11460 300269007633 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 300269007634 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 300269007635 Helicase; Region: Helicase_RecD; pfam05127 300269007636 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 300269007637 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 300269007638 Predicted metalloprotease [General function prediction only]; Region: COG2321 300269007639 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 300269007640 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 300269007641 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 300269007642 ATP binding site [chemical binding]; other site 300269007643 active site 300269007644 substrate binding site [chemical binding]; other site 300269007645 lipoprotein; Provisional; Region: PRK11679 300269007646 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 300269007647 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 300269007648 dihydrodipicolinate synthase; Region: dapA; TIGR00674 300269007649 dimer interface [polypeptide binding]; other site 300269007650 active site 300269007651 catalytic residue [active] 300269007652 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 300269007653 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 300269007654 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 300269007655 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 300269007656 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 300269007657 catalytic triad [active] 300269007658 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 300269007659 4Fe-4S binding domain; Region: Fer4; pfam00037 300269007660 hydrogenase 4 subunit B; Validated; Region: PRK06521 300269007661 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007662 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 300269007663 NADH dehydrogenase; Region: NADHdh; cl00469 300269007664 hydrogenase 4 subunit D; Validated; Region: PRK06525 300269007665 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007666 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 300269007667 hydrogenase 4 subunit F; Validated; Region: PRK06458 300269007668 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269007669 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 300269007670 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 300269007671 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 300269007672 hydrogenase 4 subunit H; Validated; Region: PRK08222 300269007673 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269007674 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 300269007675 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 300269007676 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 300269007677 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 300269007678 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 300269007679 Walker A motif; other site 300269007680 ATP binding site [chemical binding]; other site 300269007681 Walker B motif; other site 300269007682 arginine finger; other site 300269007683 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 300269007684 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269007685 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269007686 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 300269007687 Domain of unknown function DUF20; Region: UPF0118; pfam01594 300269007688 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 300269007689 Peptidase family M48; Region: Peptidase_M48; cl12018 300269007690 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 300269007691 ArsC family; Region: ArsC; pfam03960 300269007692 catalytic residues [active] 300269007693 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 300269007694 DNA replication initiation factor; Provisional; Region: PRK08084 300269007695 uracil transporter; Provisional; Region: PRK10720 300269007696 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269007697 active site 300269007698 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 300269007699 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 300269007700 dimerization interface [polypeptide binding]; other site 300269007701 putative ATP binding site [chemical binding]; other site 300269007702 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 300269007703 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 300269007704 active site 300269007705 substrate binding site [chemical binding]; other site 300269007706 cosubstrate binding site; other site 300269007707 catalytic site [active] 300269007708 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 300269007709 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 300269007710 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 300269007711 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 300269007712 domain interface [polypeptide binding]; other site 300269007713 active site 300269007714 catalytic site [active] 300269007715 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 300269007716 putative active site [active] 300269007717 catalytic site [active] 300269007718 exopolyphosphatase; Provisional; Region: PRK10854 300269007719 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 300269007720 MASE1; Region: MASE1; pfam05231 300269007721 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269007722 diguanylate cyclase; Region: GGDEF; smart00267 300269007723 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 300269007724 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 300269007725 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 300269007726 GMP synthase; Reviewed; Region: guaA; PRK00074 300269007727 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 300269007728 AMP/PPi binding site [chemical binding]; other site 300269007729 candidate oxyanion hole; other site 300269007730 catalytic triad [active] 300269007731 potential glutamine specificity residues [chemical binding]; other site 300269007732 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 300269007733 ATP Binding subdomain [chemical binding]; other site 300269007734 Ligand Binding sites [chemical binding]; other site 300269007735 Dimerization subdomain; other site 300269007736 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 300269007737 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 300269007738 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 300269007739 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 300269007740 active site 300269007741 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 300269007742 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 300269007743 generic binding surface II; other site 300269007744 generic binding surface I; other site 300269007745 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 300269007746 GTP-binding protein Der; Reviewed; Region: PRK00093 300269007747 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 300269007748 G1 box; other site 300269007749 GTP/Mg2+ binding site [chemical binding]; other site 300269007750 Switch I region; other site 300269007751 G2 box; other site 300269007752 Switch II region; other site 300269007753 G3 box; other site 300269007754 G4 box; other site 300269007755 G5 box; other site 300269007756 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 300269007757 G1 box; other site 300269007758 GTP/Mg2+ binding site [chemical binding]; other site 300269007759 Switch I region; other site 300269007760 G2 box; other site 300269007761 G3 box; other site 300269007762 Switch II region; other site 300269007763 G4 box; other site 300269007764 G5 box; other site 300269007765 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 300269007766 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 300269007767 Trp docking motif [polypeptide binding]; other site 300269007768 active site 300269007769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 300269007770 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 300269007771 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 300269007772 dimer interface [polypeptide binding]; other site 300269007773 motif 1; other site 300269007774 active site 300269007775 motif 2; other site 300269007776 motif 3; other site 300269007777 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 300269007778 anticodon binding site; other site 300269007779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 300269007780 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 300269007781 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 300269007782 cytoskeletal protein RodZ; Provisional; Region: PRK10856 300269007783 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 300269007784 non-specific DNA binding site [nucleotide binding]; other site 300269007785 salt bridge; other site 300269007786 sequence-specific DNA binding site [nucleotide binding]; other site 300269007787 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 300269007788 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 300269007789 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 300269007790 FeS/SAM binding site; other site 300269007791 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 300269007792 active site 300269007793 multimer interface [polypeptide binding]; other site 300269007794 penicillin-binding protein 1C; Provisional; Region: PRK11240 300269007795 Transglycosylase; Region: Transgly; pfam00912 300269007796 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 300269007797 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 300269007798 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 300269007799 MG2 domain; Region: A2M_N; pfam01835 300269007800 Alpha-2-macroglobulin family; Region: A2M; pfam00207 300269007801 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 300269007802 surface patch; other site 300269007803 thioester region; other site 300269007804 specificity defining residues; other site 300269007805 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 300269007806 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 300269007807 active site residue [active] 300269007808 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 300269007809 active site residue [active] 300269007810 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 300269007811 aminopeptidase B; Provisional; Region: PRK05015 300269007812 Peptidase; Region: DUF3663; pfam12404 300269007813 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 300269007814 interface (dimer of trimers) [polypeptide binding]; other site 300269007815 Substrate-binding/catalytic site; other site 300269007816 Zn-binding sites [ion binding]; other site 300269007817 hypothetical protein; Provisional; Region: PRK10721 300269007818 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 300269007819 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 300269007820 catalytic loop [active] 300269007821 iron binding site [ion binding]; other site 300269007822 chaperone protein HscA; Provisional; Region: hscA; PRK05183 300269007823 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 300269007824 nucleotide binding site [chemical binding]; other site 300269007825 putative NEF/HSP70 interaction site [polypeptide binding]; other site 300269007826 SBD interface [polypeptide binding]; other site 300269007827 co-chaperone HscB; Provisional; Region: hscB; PRK05014 300269007828 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 300269007829 HSP70 interaction site [polypeptide binding]; other site 300269007830 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 300269007831 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 300269007832 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 300269007833 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 300269007834 trimerization site [polypeptide binding]; other site 300269007835 active site 300269007836 cysteine desulfurase; Provisional; Region: PRK14012 300269007837 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 300269007838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 300269007839 catalytic residue [active] 300269007840 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 300269007841 Rrf2 family protein; Region: rrf2_super; TIGR00738 300269007842 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 300269007843 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 300269007844 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 300269007845 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 300269007846 active site 300269007847 dimerization interface [polypeptide binding]; other site 300269007848 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 300269007849 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 300269007850 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 300269007851 PRD domain; Region: PRD; pfam00874 300269007852 PRD domain; Region: PRD; pfam00874 300269007853 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 300269007854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269007855 putative substrate translocation pore; other site 300269007856 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 300269007857 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 300269007858 iron-sulfur cluster [ion binding]; other site 300269007859 [2Fe-2S] cluster binding site [ion binding]; other site 300269007860 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 300269007861 beta subunit interface [polypeptide binding]; other site 300269007862 alpha subunit interface [polypeptide binding]; other site 300269007863 active site 300269007864 substrate binding site [chemical binding]; other site 300269007865 Fe binding site [ion binding]; other site 300269007866 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 300269007867 inter-subunit interface; other site 300269007868 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 300269007869 [2Fe-2S] cluster binding site [ion binding]; other site 300269007870 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 300269007871 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 300269007872 NAD binding site [chemical binding]; other site 300269007873 active site 300269007874 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 300269007875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269007876 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269007877 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 300269007878 active site 300269007879 catalytic residues [active] 300269007880 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 300269007881 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 300269007882 putative NAD(P) binding site [chemical binding]; other site 300269007883 catalytic Zn binding site [ion binding]; other site 300269007884 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269007885 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 300269007886 TM-ABC transporter signature motif; other site 300269007887 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 300269007888 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 300269007889 Walker A/P-loop; other site 300269007890 ATP binding site [chemical binding]; other site 300269007891 Q-loop/lid; other site 300269007892 ABC transporter signature motif; other site 300269007893 Walker B; other site 300269007894 D-loop; other site 300269007895 H-loop/switch region; other site 300269007896 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 300269007897 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 300269007898 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 300269007899 ligand binding site [chemical binding]; other site 300269007900 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 300269007901 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 300269007902 dimer interface [polypeptide binding]; other site 300269007903 active site 300269007904 glycine-pyridoxal phosphate binding site [chemical binding]; other site 300269007905 folate binding site [chemical binding]; other site 300269007906 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 300269007907 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 300269007908 heme-binding site [chemical binding]; other site 300269007909 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 300269007910 FAD binding pocket [chemical binding]; other site 300269007911 FAD binding motif [chemical binding]; other site 300269007912 phosphate binding motif [ion binding]; other site 300269007913 beta-alpha-beta structure motif; other site 300269007914 NAD binding pocket [chemical binding]; other site 300269007915 Heme binding pocket [chemical binding]; other site 300269007916 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 300269007917 Nitrogen regulatory protein P-II; Region: P-II; smart00938 300269007918 response regulator GlrR; Provisional; Region: PRK15115 300269007919 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 300269007920 active site 300269007921 phosphorylation site [posttranslational modification] 300269007922 intermolecular recognition site; other site 300269007923 dimerization interface [polypeptide binding]; other site 300269007924 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 300269007925 Walker A motif; other site 300269007926 ATP binding site [chemical binding]; other site 300269007927 Walker B motif; other site 300269007928 arginine finger; other site 300269007929 hypothetical protein; Provisional; Region: PRK10722 300269007930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 300269007931 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 300269007932 dimer interface [polypeptide binding]; other site 300269007933 phosphorylation site [posttranslational modification] 300269007934 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 300269007935 ATP binding site [chemical binding]; other site 300269007936 Mg2+ binding site [ion binding]; other site 300269007937 G-X-G motif; other site 300269007938 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 300269007939 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 300269007940 dimerization interface [polypeptide binding]; other site 300269007941 ATP binding site [chemical binding]; other site 300269007942 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 300269007943 dimerization interface [polypeptide binding]; other site 300269007944 ATP binding site [chemical binding]; other site 300269007945 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 300269007946 putative active site [active] 300269007947 catalytic triad [active] 300269007948 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 300269007949 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 300269007950 substrate binding pocket [chemical binding]; other site 300269007951 membrane-bound complex binding site; other site 300269007952 hinge residues; other site 300269007953 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 300269007954 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269007955 catalytic residue [active] 300269007956 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 300269007957 nucleoside/Zn binding site; other site 300269007958 dimer interface [polypeptide binding]; other site 300269007959 catalytic motif [active] 300269007960 hypothetical protein; Provisional; Region: PRK11590 300269007961 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 300269007962 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 300269007963 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 300269007964 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 300269007965 putative active site [active] 300269007966 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269007967 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 300269007968 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269007969 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 300269007970 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269007971 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 300269007972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269007973 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 300269007974 Integrase core domain; Region: rve; pfam00665 300269007975 Integrase core domain; Region: rve_3; pfam13683 300269007976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269007977 Transposase; Region: HTH_Tnp_1; pfam01527 300269007978 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269007979 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269007980 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269007981 Integrase core domain; Region: rve; pfam00665 300269007982 Integrase core domain; Region: rve_3; pfam13683 300269007983 Transposase; Region: HTH_Tnp_1; cl17663 300269007984 Colicin E1 (microcin) immunity protein; Region: Microcin; pfam03526 300269007985 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269007986 HTH-like domain; Region: HTH_21; pfam13276 300269007987 Integrase core domain; Region: rve; pfam00665 300269007988 Integrase core domain; Region: rve_3; pfam13683 300269007989 Replicase family; Region: Replicase; pfam03090 300269007990 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 300269007991 Protein of unknown function, DUF399; Region: DUF399; pfam04187 300269007992 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 300269007993 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 300269007994 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 300269007995 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 300269007996 Uncharacterized conserved protein [Function unknown]; Region: COG3391 300269007997 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 300269007998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269007999 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 300269008000 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269008001 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 300269008002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269008003 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 300269008004 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008005 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269008006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269008007 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269008008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008009 Transposase; Region: HTH_Tnp_1; pfam01527 300269008010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008011 Integrase core domain; Region: rve; pfam00665 300269008012 Integrase core domain; Region: rve_3; pfam13683 300269008013 conjugal transfer fertility inhibition protein FinO; Provisional; Region: PRK13754 300269008014 Fertility inhibition protein N terminal; Region: FinO_N; pfam12602 300269008015 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cd00236 300269008016 putative RNA binding sites [nucleotide binding]; other site 300269008017 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 300269008018 DNA helicase TraI; Region: TraI; pfam07057 300269008019 conjugal transfer protein TrbI; Provisional; Region: PRK13717 300269008020 AAA-like domain; Region: AAA_10; pfam12846 300269008021 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 300269008022 Walker A motif; other site 300269008023 ATP binding site [chemical binding]; other site 300269008024 conjugal transfer pilus assembly protein TraL; Provisional; Region: PRK13707 300269008025 conjugal transfer pilin subunit TraA; Provisional; Region: PRK13734 300269008026 putative transposase OrfB; Reviewed; Region: PHA02517 300269008027 HTH-like domain; Region: HTH_21; pfam13276 300269008028 Integrase core domain; Region: rve; pfam00665 300269008029 Integrase core domain; Region: rve_3; cl15866 300269008030 transposase/IS protein; Provisional; Region: PRK09183 300269008031 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 300269008032 Walker A motif; other site 300269008033 ATP binding site [chemical binding]; other site 300269008034 Walker B motif; other site 300269008035 arginine finger; other site 300269008036 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269008037 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269008038 Integrase core domain; Region: rve; pfam00665 300269008039 Integrase core domain; Region: rve_3; cl15866 300269008040 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269008041 Putative transposase; Region: Y2_Tnp; pfam04986 300269008042 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 300269008043 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 300269008044 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 300269008045 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 300269008046 active site 300269008047 hydrophilic channel; other site 300269008048 dimerization interface [polypeptide binding]; other site 300269008049 catalytic residues [active] 300269008050 active site lid [active] 300269008051 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 300269008052 Recombination protein O N terminal; Region: RecO_N; pfam11967 300269008053 Recombination protein O C terminal; Region: RecO_C; pfam02565 300269008054 GTPase Era; Reviewed; Region: era; PRK00089 300269008055 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 300269008056 G1 box; other site 300269008057 GTP/Mg2+ binding site [chemical binding]; other site 300269008058 Switch I region; other site 300269008059 G2 box; other site 300269008060 Switch II region; other site 300269008061 G3 box; other site 300269008062 G4 box; other site 300269008063 G5 box; other site 300269008064 KH domain; Region: KH_2; pfam07650 300269008065 ribonuclease III; Reviewed; Region: rnc; PRK00102 300269008066 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 300269008067 dimerization interface [polypeptide binding]; other site 300269008068 active site 300269008069 metal binding site [ion binding]; metal-binding site 300269008070 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 300269008071 dsRNA binding site [nucleotide binding]; other site 300269008072 signal peptidase I; Provisional; Region: PRK10861 300269008073 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 300269008074 Catalytic site [active] 300269008075 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 300269008076 GTP-binding protein LepA; Provisional; Region: PRK05433 300269008077 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 300269008078 G1 box; other site 300269008079 putative GEF interaction site [polypeptide binding]; other site 300269008080 GTP/Mg2+ binding site [chemical binding]; other site 300269008081 Switch I region; other site 300269008082 G2 box; other site 300269008083 G3 box; other site 300269008084 Switch II region; other site 300269008085 G4 box; other site 300269008086 G5 box; other site 300269008087 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 300269008088 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 300269008089 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 300269008090 SoxR reducing system protein RseC; Provisional; Region: PRK10862 300269008091 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 300269008092 anti-sigma E factor; Provisional; Region: rseB; PRK09455 300269008093 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 300269008094 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 300269008095 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 300269008096 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 300269008097 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269008098 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 300269008099 DNA binding residues [nucleotide binding] 300269008100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008101 Transposase; Region: HTH_Tnp_1; pfam01527 300269008102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008103 Integrase core domain; Region: rve; pfam00665 300269008104 Integrase core domain; Region: rve_3; pfam13683 300269008105 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 300269008106 Methyltransferase domain; Region: Methyltransf_26; pfam13659 300269008107 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 300269008108 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 300269008109 ATP binding site [chemical binding]; other site 300269008110 Mg++ binding site [ion binding]; other site 300269008111 motif III; other site 300269008112 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 300269008113 nucleotide binding region [chemical binding]; other site 300269008114 ATP-binding site [chemical binding]; other site 300269008115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269008116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269008117 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 300269008118 dimerization interface [polypeptide binding]; other site 300269008119 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 300269008120 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 300269008121 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 300269008122 ligand binding site [chemical binding]; other site 300269008123 active site 300269008124 UGI interface [polypeptide binding]; other site 300269008125 catalytic site [active] 300269008126 putative methyltransferase; Provisional; Region: PRK10864 300269008127 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 300269008128 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 300269008129 thioredoxin 2; Provisional; Region: PRK10996 300269008130 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 300269008131 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 300269008132 catalytic residues [active] 300269008133 Uncharacterized conserved protein [Function unknown]; Region: COG3148 300269008134 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 300269008135 CoA binding domain; Region: CoA_binding_2; pfam13380 300269008136 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 300269008137 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 300269008138 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 300269008139 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 300269008140 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 300269008141 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 300269008142 domain interface [polypeptide binding]; other site 300269008143 putative active site [active] 300269008144 catalytic site [active] 300269008145 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 300269008146 domain interface [polypeptide binding]; other site 300269008147 putative active site [active] 300269008148 catalytic site [active] 300269008149 lipoprotein; Provisional; Region: PRK10759 300269008150 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 300269008151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008152 putative substrate translocation pore; other site 300269008153 protein disaggregation chaperone; Provisional; Region: PRK10865 300269008154 Clp amino terminal domain; Region: Clp_N; pfam02861 300269008155 Clp amino terminal domain; Region: Clp_N; pfam02861 300269008156 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 300269008157 Walker A motif; other site 300269008158 ATP binding site [chemical binding]; other site 300269008159 Walker B motif; other site 300269008160 arginine finger; other site 300269008161 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 300269008162 Walker A motif; other site 300269008163 ATP binding site [chemical binding]; other site 300269008164 Walker B motif; other site 300269008165 arginine finger; other site 300269008166 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 300269008167 hypothetical protein; Provisional; Region: PRK10723 300269008168 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 300269008169 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 300269008170 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 300269008171 RNA binding surface [nucleotide binding]; other site 300269008172 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 300269008173 active site 300269008174 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 300269008175 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 300269008176 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008177 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008178 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008179 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 300269008180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008181 Transposase; Region: HTH_Tnp_1; pfam01527 300269008182 Integrase core domain; Region: rve; pfam00665 300269008183 Integrase core domain; Region: rve_3; pfam13683 300269008184 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 300269008185 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 300269008186 Phage tail tube protein; Region: Tail_tube; pfam10618 300269008187 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 300269008188 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 300269008189 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008190 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 300269008191 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 300269008192 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 300269008193 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 300269008194 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; pfam06890 300269008195 Phage protein GP46; Region: GP46; pfam07409 300269008196 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 300269008197 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008198 Baseplate J-like protein; Region: Baseplate_J; cl01294 300269008199 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 300269008200 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 300269008201 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 300269008202 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 300269008203 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 300269008204 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 300269008205 SmpB-tmRNA interface; other site 300269008206 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 300269008207 putative coenzyme Q binding site [chemical binding]; other site 300269008208 hypothetical protein; Validated; Region: PRK01777 300269008209 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008210 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008211 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008212 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 300269008213 30S subunit binding site; other site 300269008214 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 300269008215 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 300269008216 Prephenate dehydratase; Region: PDT; pfam00800 300269008217 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 300269008218 putative L-Phe binding site [chemical binding]; other site 300269008219 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 300269008220 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 300269008221 prephenate dehydrogenase; Validated; Region: PRK08507 300269008222 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 300269008223 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 300269008224 lipoprotein; Provisional; Region: PRK11443 300269008225 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 300269008226 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008227 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 300269008228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008229 Integrase core domain; Region: rve; pfam00665 300269008230 Integrase core domain; Region: rve_3; pfam13683 300269008231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008232 Transposase; Region: HTH_Tnp_1; pfam01527 300269008233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008234 Transposase; Region: HTH_Tnp_1; pfam01527 300269008235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269008236 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269008237 Integrase core domain; Region: rve; pfam00665 300269008238 Integrase core domain; Region: rve_3; cl15866 300269008239 transposase/IS protein; Provisional; Region: PRK09183 300269008240 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 300269008241 Walker A motif; other site 300269008242 ATP binding site [chemical binding]; other site 300269008243 Walker B motif; other site 300269008244 arginine finger; other site 300269008245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 300269008246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269008247 metal binding site [ion binding]; metal-binding site 300269008248 active site 300269008249 I-site; other site 300269008250 putative outer membrane lipoprotein; Provisional; Region: PRK09967 300269008251 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269008252 ligand binding site [chemical binding]; other site 300269008253 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 300269008254 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 300269008255 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 300269008256 RimM N-terminal domain; Region: RimM; pfam01782 300269008257 PRC-barrel domain; Region: PRC; pfam05239 300269008258 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 300269008259 signal recognition particle protein; Provisional; Region: PRK10867 300269008260 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 300269008261 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 300269008262 P loop; other site 300269008263 GTP binding site [chemical binding]; other site 300269008264 Signal peptide binding domain; Region: SRP_SPB; pfam02978 300269008265 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 300269008266 hypothetical protein; Provisional; Region: PRK11573 300269008267 Domain of unknown function DUF21; Region: DUF21; pfam01595 300269008268 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 300269008269 Transporter associated domain; Region: CorC_HlyC; smart01091 300269008270 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 300269008271 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 300269008272 dimer interface [polypeptide binding]; other site 300269008273 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 300269008274 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 300269008275 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 300269008276 recombination and repair protein; Provisional; Region: PRK10869 300269008277 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 300269008278 Walker A/P-loop; other site 300269008279 ATP binding site [chemical binding]; other site 300269008280 Q-loop/lid; other site 300269008281 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 300269008282 Q-loop/lid; other site 300269008283 ABC transporter signature motif; other site 300269008284 Walker B; other site 300269008285 D-loop; other site 300269008286 H-loop/switch region; other site 300269008287 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 300269008288 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 300269008289 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269008290 HTH-like domain; Region: HTH_21; pfam13276 300269008291 Integrase core domain; Region: rve; pfam00665 300269008292 Integrase core domain; Region: rve_3; pfam13683 300269008293 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008294 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008295 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008296 Phage-related protein [Function unknown]; Region: COG4695 300269008297 Phage portal protein; Region: Phage_portal; pfam04860 300269008298 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 300269008299 Phage terminase, small subunit; Region: Terminase_4; pfam05119 300269008300 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 300269008301 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 300269008302 active site 300269008303 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 300269008304 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 300269008305 catalytic residues [active] 300269008306 Lysis protein S; Region: Lysis_S; pfam04971 300269008307 ORF6N domain; Region: ORF6N; pfam10543 300269008308 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 300269008309 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 300269008310 replicative DNA helicase; Region: DnaB; TIGR00665 300269008311 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 300269008312 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 300269008313 Walker A motif; other site 300269008314 ATP binding site [chemical binding]; other site 300269008315 Walker B motif; other site 300269008316 DNA binding loops [nucleotide binding] 300269008317 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269008318 HTH-like domain; Region: HTH_21; pfam13276 300269008319 Integrase core domain; Region: rve; pfam00665 300269008320 Integrase core domain; Region: rve_3; pfam13683 300269008321 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269008322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008323 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008324 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008325 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 300269008326 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 300269008327 active site 300269008328 catalytic site [active] 300269008329 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 300269008330 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 300269008331 substrate binding pocket [chemical binding]; other site 300269008332 active site 300269008333 iron coordination sites [ion binding]; other site 300269008334 Predicted dehydrogenase [General function prediction only]; Region: COG0579 300269008335 hydroxyglutarate oxidase; Provisional; Region: PRK11728 300269008336 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 300269008337 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 300269008338 tetramerization interface [polypeptide binding]; other site 300269008339 NAD(P) binding site [chemical binding]; other site 300269008340 catalytic residues [active] 300269008341 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 300269008342 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 300269008343 inhibitor-cofactor binding pocket; inhibition site 300269008344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269008345 catalytic residue [active] 300269008346 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 300269008347 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 300269008348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269008349 DNA-binding site [nucleotide binding]; DNA binding site 300269008350 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269008351 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 300269008352 bacterial OsmY and nodulation domain; Region: BON; smart00749 300269008353 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269008354 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 300269008355 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 300269008356 dimerization interface [polypeptide binding]; other site 300269008357 putative DNA binding site [nucleotide binding]; other site 300269008358 Transcriptional regulators [Transcription]; Region: MarR; COG1846 300269008359 putative Zn2+ binding site [ion binding]; other site 300269008360 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 300269008361 active site residue [active] 300269008362 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 300269008363 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 300269008364 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 300269008365 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269008366 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269008367 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 300269008368 hypothetical protein; Provisional; Region: PRK10556 300269008369 hypothetical protein; Provisional; Region: PRK10132 300269008370 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 300269008371 catalytic residues [active] 300269008372 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 300269008373 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 300269008374 Class I ribonucleotide reductase; Region: RNR_I; cd01679 300269008375 active site 300269008376 dimer interface [polypeptide binding]; other site 300269008377 catalytic residues [active] 300269008378 effector binding site; other site 300269008379 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 300269008380 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 300269008381 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 300269008382 dimer interface [polypeptide binding]; other site 300269008383 putative radical transfer pathway; other site 300269008384 diiron center [ion binding]; other site 300269008385 tyrosyl radical; other site 300269008386 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 300269008387 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 300269008388 Walker A/P-loop; other site 300269008389 ATP binding site [chemical binding]; other site 300269008390 Q-loop/lid; other site 300269008391 ABC transporter signature motif; other site 300269008392 Walker B; other site 300269008393 D-loop; other site 300269008394 H-loop/switch region; other site 300269008395 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 300269008396 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 300269008397 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 300269008398 dimer interface [polypeptide binding]; other site 300269008399 conserved gate region; other site 300269008400 putative PBP binding loops; other site 300269008401 ABC-ATPase subunit interface; other site 300269008402 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 300269008403 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 300269008404 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 300269008405 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008406 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 300269008407 putative L-valine exporter; Provisional; Region: PRK10408 300269008408 transcriptional repressor MprA; Provisional; Region: PRK10870 300269008409 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 300269008410 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 300269008411 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269008412 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269008413 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 300269008414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008415 putative substrate translocation pore; other site 300269008416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008417 S-ribosylhomocysteinase; Provisional; Region: PRK02260 300269008418 glutamate--cysteine ligase; Provisional; Region: PRK02107 300269008419 Predicted membrane protein [Function unknown]; Region: COG1238 300269008420 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 300269008421 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 300269008422 motif II; other site 300269008423 carbon storage regulator; Provisional; Region: PRK01712 300269008424 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 300269008425 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 300269008426 motif 1; other site 300269008427 active site 300269008428 motif 2; other site 300269008429 motif 3; other site 300269008430 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 300269008431 DHHA1 domain; Region: DHHA1; pfam02272 300269008432 recombination regulator RecX; Reviewed; Region: recX; PRK00117 300269008433 recombinase A; Provisional; Region: recA; PRK09354 300269008434 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 300269008435 hexamer interface [polypeptide binding]; other site 300269008436 Walker A motif; other site 300269008437 ATP binding site [chemical binding]; other site 300269008438 Walker B motif; other site 300269008439 hypothetical protein; Validated; Region: PRK03661 300269008440 Transglycosylase SLT domain; Region: SLT_2; pfam13406 300269008441 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 300269008442 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269008443 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 300269008444 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 300269008445 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 300269008446 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 300269008447 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 300269008448 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 300269008449 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 300269008450 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269008451 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269008452 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 300269008453 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 300269008454 putative active site [active] 300269008455 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 300269008456 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 300269008457 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 300269008458 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 300269008459 Walker A motif; other site 300269008460 ATP binding site [chemical binding]; other site 300269008461 Walker B motif; other site 300269008462 arginine finger; other site 300269008463 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 300269008464 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 300269008465 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 300269008466 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 300269008467 iron binding site [ion binding]; other site 300269008468 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 300269008469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269008470 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 300269008471 Acylphosphatase; Region: Acylphosphatase; pfam00708 300269008472 HypF finger; Region: zf-HYPF; pfam07503 300269008473 HypF finger; Region: zf-HYPF; pfam07503 300269008474 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 300269008475 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 300269008476 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 300269008477 Transcriptional regulators [Transcription]; Region: PurR; COG1609 300269008478 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269008479 DNA binding site [nucleotide binding] 300269008480 domain linker motif; other site 300269008481 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 300269008482 dimerization interface (closed form) [polypeptide binding]; other site 300269008483 ligand binding site [chemical binding]; other site 300269008484 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 300269008485 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 300269008486 active site turn [active] 300269008487 phosphorylation site [posttranslational modification] 300269008488 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 300269008489 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 300269008490 beta-galactosidase; Region: BGL; TIGR03356 300269008491 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 300269008492 non-specific DNA binding site [nucleotide binding]; other site 300269008493 salt bridge; other site 300269008494 sequence-specific DNA binding site [nucleotide binding]; other site 300269008495 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 300269008496 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 300269008497 nickel binding site [ion binding]; other site 300269008498 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 300269008499 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 300269008500 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 300269008501 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 300269008502 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 300269008503 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 300269008504 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 300269008505 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 300269008506 NADH dehydrogenase; Region: NADHdh; cl00469 300269008507 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 300269008508 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 300269008509 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 300269008510 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 300269008511 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 300269008512 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 300269008513 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 300269008514 hydrogenase assembly chaperone; Provisional; Region: PRK10409 300269008515 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 300269008516 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 300269008517 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 300269008518 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 300269008519 dimerization interface [polypeptide binding]; other site 300269008520 ATP binding site [chemical binding]; other site 300269008521 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 300269008522 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 300269008523 MutS domain I; Region: MutS_I; pfam01624 300269008524 MutS domain II; Region: MutS_II; pfam05188 300269008525 MutS domain III; Region: MutS_III; pfam05192 300269008526 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 300269008527 Walker A/P-loop; other site 300269008528 ATP binding site [chemical binding]; other site 300269008529 Q-loop/lid; other site 300269008530 ABC transporter signature motif; other site 300269008531 Walker B; other site 300269008532 D-loop; other site 300269008533 H-loop/switch region; other site 300269008534 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008535 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 300269008536 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 300269008537 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269008538 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 300269008539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 300269008540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 300269008541 putative aldolase; Validated; Region: PRK08130 300269008542 active site 300269008543 intersubunit interface [polypeptide binding]; other site 300269008544 Zn2+ binding site [ion binding]; other site 300269008545 hypothetical protein; Provisional; Region: PRK09989 300269008546 putative transporter; Provisional; Region: PRK09821 300269008547 GntP family permease; Region: GntP_permease; pfam02447 300269008548 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 300269008549 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 300269008550 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269008551 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 300269008552 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 300269008553 DNA binding residues [nucleotide binding] 300269008554 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 300269008555 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269008556 Peptidase family M23; Region: Peptidase_M23; pfam01551 300269008557 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 300269008558 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 300269008559 S-adenosylmethionine binding site [chemical binding]; other site 300269008560 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 300269008561 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 300269008562 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 300269008563 Permutation of conserved domain; other site 300269008564 active site 300269008565 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 300269008566 homotrimer interaction site [polypeptide binding]; other site 300269008567 zinc binding site [ion binding]; other site 300269008568 CDP-binding sites; other site 300269008569 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 300269008570 substrate binding site; other site 300269008571 dimer interface; other site 300269008572 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 300269008573 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 300269008574 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 300269008575 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 300269008576 ligand-binding site [chemical binding]; other site 300269008577 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 300269008578 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 300269008579 CysD dimerization site [polypeptide binding]; other site 300269008580 G1 box; other site 300269008581 putative GEF interaction site [polypeptide binding]; other site 300269008582 GTP/Mg2+ binding site [chemical binding]; other site 300269008583 Switch I region; other site 300269008584 G2 box; other site 300269008585 G3 box; other site 300269008586 Switch II region; other site 300269008587 G4 box; other site 300269008588 G5 box; other site 300269008589 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 300269008590 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 300269008591 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 300269008592 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 300269008593 Active Sites [active] 300269008594 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 300269008595 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 300269008596 metal binding site [ion binding]; metal-binding site 300269008597 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 300269008598 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 300269008599 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269008600 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269008601 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 300269008602 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 300269008603 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 300269008604 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 300269008605 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008606 Transposase; Region: HTH_Tnp_1; pfam01527 300269008607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008608 Integrase core domain; Region: rve; pfam00665 300269008609 Integrase core domain; Region: rve_3; pfam13683 300269008610 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 300269008611 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 300269008612 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 300269008613 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 300269008614 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 300269008615 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 300269008616 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 300269008617 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 300269008618 Active Sites [active] 300269008619 sulfite reductase subunit beta; Provisional; Region: PRK13504 300269008620 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 300269008621 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 300269008622 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 300269008623 Flavodoxin; Region: Flavodoxin_1; pfam00258 300269008624 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 300269008625 FAD binding pocket [chemical binding]; other site 300269008626 FAD binding motif [chemical binding]; other site 300269008627 catalytic residues [active] 300269008628 NAD binding pocket [chemical binding]; other site 300269008629 phosphate binding motif [ion binding]; other site 300269008630 beta-alpha-beta structure motif; other site 300269008631 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a...; Region: PTPS; cd00470 300269008632 homohexamer interface [polypeptide binding]; other site 300269008633 putative substrate stabilizing pore; other site 300269008634 pterin binding site; other site 300269008635 putative oxidoreductase FixC; Provisional; Region: PRK10157 300269008636 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 300269008637 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 300269008638 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 300269008639 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 300269008640 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 300269008641 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 300269008642 Ligand binding site [chemical binding]; other site 300269008643 Electron transfer flavoprotein domain; Region: ETF; pfam01012 300269008644 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 300269008645 benzoate transport; Region: 2A0115; TIGR00895 300269008646 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008647 putative substrate translocation pore; other site 300269008648 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 300269008649 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269008650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008651 putative substrate translocation pore; other site 300269008652 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008653 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 300269008654 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 300269008655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008656 Transposase; Region: HTH_Tnp_1; pfam01527 300269008657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008658 Integrase core domain; Region: rve; pfam00665 300269008659 Integrase core domain; Region: rve_3; pfam13683 300269008660 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 300269008661 Repair protein; Region: Repair_PSII; pfam04536 300269008662 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008663 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008664 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008665 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008666 enolase; Provisional; Region: eno; PRK00077 300269008667 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 300269008668 dimer interface [polypeptide binding]; other site 300269008669 metal binding site [ion binding]; metal-binding site 300269008670 substrate binding pocket [chemical binding]; other site 300269008671 CTP synthetase; Validated; Region: pyrG; PRK05380 300269008672 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 300269008673 Catalytic site [active] 300269008674 active site 300269008675 UTP binding site [chemical binding]; other site 300269008676 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 300269008677 active site 300269008678 putative oxyanion hole; other site 300269008679 catalytic triad [active] 300269008680 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 300269008681 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 300269008682 homodimer interface [polypeptide binding]; other site 300269008683 metal binding site [ion binding]; metal-binding site 300269008684 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 300269008685 homodimer interface [polypeptide binding]; other site 300269008686 active site 300269008687 putative chemical substrate binding site [chemical binding]; other site 300269008688 metal binding site [ion binding]; metal-binding site 300269008689 toxin MazF; Provisional; Region: PRK09907 300269008690 antitoxin MazE; Provisional; Region: PRK09798 300269008691 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 300269008692 HD domain; Region: HD_4; pfam13328 300269008693 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 300269008694 synthetase active site [active] 300269008695 NTP binding site [chemical binding]; other site 300269008696 metal binding site [ion binding]; metal-binding site 300269008697 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 300269008698 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 300269008699 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 300269008700 TRAM domain; Region: TRAM; pfam01938 300269008701 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 300269008702 S-adenosylmethionine binding site [chemical binding]; other site 300269008703 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 300269008704 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 300269008705 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 300269008706 dimerization interface [polypeptide binding]; other site 300269008707 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 300269008708 dimer interface [polypeptide binding]; other site 300269008709 phosphorylation site [posttranslational modification] 300269008710 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 300269008711 ATP binding site [chemical binding]; other site 300269008712 Mg2+ binding site [ion binding]; other site 300269008713 G-X-G motif; other site 300269008714 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 300269008715 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 300269008716 active site 300269008717 phosphorylation site [posttranslational modification] 300269008718 intermolecular recognition site; other site 300269008719 dimerization interface [polypeptide binding]; other site 300269008720 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 300269008721 putative binding surface; other site 300269008722 active site 300269008723 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 300269008724 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 300269008725 active site 300269008726 tetramer interface [polypeptide binding]; other site 300269008727 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 300269008728 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 300269008729 active site 300269008730 tetramer interface [polypeptide binding]; other site 300269008731 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008732 D-galactonate transporter; Region: 2A0114; TIGR00893 300269008733 putative substrate translocation pore; other site 300269008734 flavodoxin; Provisional; Region: PRK08105 300269008735 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 300269008736 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 300269008737 probable active site [active] 300269008738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 300269008739 SecY interacting protein Syd; Provisional; Region: PRK04968 300269008740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 300269008741 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 300269008742 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 300269008743 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 300269008744 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 300269008745 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 300269008746 serine transporter; Region: stp; TIGR00814 300269008747 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 300269008748 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 300269008749 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 300269008750 flap endonuclease-like protein; Provisional; Region: PRK09482 300269008751 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 300269008752 active site 300269008753 metal binding site 1 [ion binding]; metal-binding site 300269008754 putative 5' ssDNA interaction site; other site 300269008755 metal binding site 3; metal-binding site 300269008756 metal binding site 2 [ion binding]; metal-binding site 300269008757 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 300269008758 putative DNA binding site [nucleotide binding]; other site 300269008759 putative metal binding site [ion binding]; other site 300269008760 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 300269008761 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 300269008762 dimer interface [polypeptide binding]; other site 300269008763 active site 300269008764 metal binding site [ion binding]; metal-binding site 300269008765 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 300269008766 intersubunit interface [polypeptide binding]; other site 300269008767 active site 300269008768 Zn2+ binding site [ion binding]; other site 300269008769 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 300269008770 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008771 putative substrate translocation pore; other site 300269008772 L-fuculokinase; Provisional; Region: PRK10331 300269008773 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 300269008774 nucleotide binding site [chemical binding]; other site 300269008775 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 300269008776 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 300269008777 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269008778 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269008779 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 300269008780 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 300269008781 hypothetical protein; Provisional; Region: PRK10873 300269008782 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 300269008783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269008784 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 300269008785 dimerization interface [polypeptide binding]; other site 300269008786 substrate binding pocket [chemical binding]; other site 300269008787 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 300269008788 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 300269008789 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 300269008790 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 300269008791 catalytic residue [active] 300269008792 CsdA-binding activator; Provisional; Region: PRK15019 300269008793 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 300269008794 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 300269008795 putative ATP binding site [chemical binding]; other site 300269008796 putative substrate interface [chemical binding]; other site 300269008797 murein transglycosylase A; Provisional; Region: mltA; PRK11162 300269008798 MltA specific insert domain; Region: MltA; pfam03562 300269008799 3D domain; Region: 3D; pfam06725 300269008800 AMIN domain; Region: AMIN; pfam11741 300269008801 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 300269008802 active site 300269008803 metal binding site [ion binding]; metal-binding site 300269008804 N-acetylglutamate synthase; Validated; Region: PRK05279 300269008805 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 300269008806 putative feedback inhibition sensing region; other site 300269008807 putative nucleotide binding site [chemical binding]; other site 300269008808 putative substrate binding site [chemical binding]; other site 300269008809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269008810 Coenzyme A binding pocket [chemical binding]; other site 300269008811 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 300269008812 AAA domain; Region: AAA_30; pfam13604 300269008813 Family description; Region: UvrD_C_2; pfam13538 300269008814 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 300269008815 protease3; Provisional; Region: PRK15101 300269008816 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 300269008817 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 300269008818 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 300269008819 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 300269008820 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 300269008821 hypothetical protein; Provisional; Region: PRK10332 300269008822 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 300269008823 hypothetical protein; Provisional; Region: PRK11521 300269008824 hypothetical protein; Provisional; Region: PRK10557 300269008825 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 300269008826 hypothetical protein; Provisional; Region: PRK10506 300269008827 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 300269008828 thymidylate synthase; Reviewed; Region: thyA; PRK01827 300269008829 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 300269008830 dimerization interface [polypeptide binding]; other site 300269008831 active site 300269008832 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 300269008833 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 300269008834 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 300269008835 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 300269008836 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 300269008837 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 300269008838 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 300269008839 putative active site [active] 300269008840 Ap4A binding site [chemical binding]; other site 300269008841 nudix motif; other site 300269008842 putative metal binding site [ion binding]; other site 300269008843 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 300269008844 putative DNA-binding cleft [nucleotide binding]; other site 300269008845 putative DNA clevage site; other site 300269008846 molecular lever; other site 300269008847 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 300269008848 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 300269008849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008850 Integrase core domain; Region: rve; pfam00665 300269008851 Integrase core domain; Region: rve_3; pfam13683 300269008852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008853 Transposase; Region: HTH_Tnp_1; pfam01527 300269008854 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008855 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008857 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 300269008858 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269008859 active site 300269008860 catalytic tetrad [active] 300269008861 lysophospholipid transporter LplT; Provisional; Region: PRK11195 300269008862 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008863 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 300269008864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 300269008865 putative acyl-acceptor binding pocket; other site 300269008866 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 300269008867 acyl-activating enzyme (AAE) consensus motif; other site 300269008868 putative AMP binding site [chemical binding]; other site 300269008869 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 300269008870 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269008871 DNA binding site [nucleotide binding] 300269008872 domain linker motif; other site 300269008873 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 300269008874 dimerization interface (closed form) [polypeptide binding]; other site 300269008875 ligand binding site [chemical binding]; other site 300269008876 diaminopimelate decarboxylase; Provisional; Region: PRK11165 300269008877 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 300269008878 active site 300269008879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 300269008880 substrate binding site [chemical binding]; other site 300269008881 catalytic residues [active] 300269008882 dimer interface [polypeptide binding]; other site 300269008883 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 300269008884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269008885 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 300269008886 putative dimerization interface [polypeptide binding]; other site 300269008887 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 300269008888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008889 putative substrate translocation pore; other site 300269008890 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269008891 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 300269008892 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 300269008893 NADP binding site [chemical binding]; other site 300269008894 homodimer interface [polypeptide binding]; other site 300269008895 active site 300269008896 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 300269008897 putative acyltransferase; Provisional; Region: PRK05790 300269008898 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 300269008899 dimer interface [polypeptide binding]; other site 300269008900 active site 300269008901 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 300269008902 serine transporter; Region: stp; TIGR00814 300269008903 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 300269008904 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269008905 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 300269008906 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 300269008907 Tetratricopeptide repeat; Region: TPR_3; pfam07720 300269008908 Tetratricopeptide repeat; Region: TPR_3; pfam07720 300269008909 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269008910 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008911 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269008912 HTH-like domain; Region: HTH_21; pfam13276 300269008913 Integrase core domain; Region: rve; pfam00665 300269008914 Integrase core domain; Region: rve_3; pfam13683 300269008915 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 300269008916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 300269008917 Peptidase family M23; Region: Peptidase_M23; pfam01551 300269008918 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 300269008919 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 300269008920 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 300269008921 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 300269008922 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 300269008923 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 300269008924 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 300269008925 catalytic loop [active] 300269008926 iron binding site [ion binding]; other site 300269008927 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 300269008928 GAF domain; Region: GAF; cl17456 300269008929 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 300269008930 PAS domain; Region: PAS; smart00091 300269008931 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 300269008932 Walker A motif; other site 300269008933 ATP binding site [chemical binding]; other site 300269008934 Walker B motif; other site 300269008935 arginine finger; other site 300269008936 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 300269008937 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 300269008938 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 300269008939 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 300269008940 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 300269008941 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 300269008942 catalytic residue [active] 300269008943 peptidase; Reviewed; Region: PRK13004 300269008944 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 300269008945 putative metal binding site [ion binding]; other site 300269008946 putative dimer interface [polypeptide binding]; other site 300269008947 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 300269008948 carbamate kinase; Reviewed; Region: PRK12686 300269008949 putative substrate binding site [chemical binding]; other site 300269008950 homodimer interface [polypeptide binding]; other site 300269008951 nucleotide binding site [chemical binding]; other site 300269008952 nucleotide binding site [chemical binding]; other site 300269008953 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 300269008954 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 300269008955 XdhC Rossmann domain; Region: XdhC_C; pfam13478 300269008956 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 300269008957 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 300269008958 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 300269008959 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 300269008960 Ligand binding site; other site 300269008961 metal-binding site 300269008962 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269008963 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269008964 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269008965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269008966 Integrase core domain; Region: rve; pfam00665 300269008967 Integrase core domain; Region: rve_3; pfam13683 300269008968 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269008969 Transposase; Region: HTH_Tnp_1; pfam01527 300269008970 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 300269008971 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 300269008972 active site 300269008973 putative substrate binding pocket [chemical binding]; other site 300269008974 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 300269008975 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 300269008976 putative hypoxanthine oxidase; Provisional; Region: PRK09800 300269008977 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 300269008978 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 300269008979 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 300269008980 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 300269008981 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 300269008982 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 300269008983 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 300269008984 4Fe-4S binding domain; Region: Fer4; pfam00037 300269008985 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 300269008986 Homeodomain-like domain; Region: HTH_23; pfam13384 300269008987 Winged helix-turn helix; Region: HTH_29; pfam13551 300269008988 Homeodomain-like domain; Region: HTH_32; pfam13565 300269008989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269008990 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269008991 xanthine permease; Region: pbuX; TIGR03173 300269008992 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 300269008993 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 300269008994 active site 300269008995 metal binding site [ion binding]; metal-binding site 300269008996 nudix motif; other site 300269008997 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 300269008998 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 300269008999 dimer interface [polypeptide binding]; other site 300269009000 putative anticodon binding site; other site 300269009001 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 300269009002 motif 1; other site 300269009003 active site 300269009004 motif 2; other site 300269009005 motif 3; other site 300269009006 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 300269009007 DHH family; Region: DHH; pfam01368 300269009008 DHHA1 domain; Region: DHHA1; pfam02272 300269009009 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 300269009010 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 300269009011 dimerization domain [polypeptide binding]; other site 300269009012 dimer interface [polypeptide binding]; other site 300269009013 catalytic residues [active] 300269009014 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 300269009015 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 300269009016 active site 300269009017 Int/Topo IB signature motif; other site 300269009018 flavodoxin FldB; Provisional; Region: PRK12359 300269009019 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 300269009020 hypothetical protein; Provisional; Region: PRK10878 300269009021 putative global regulator; Reviewed; Region: PRK09559 300269009022 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 300269009023 hemolysin; Provisional; Region: PRK15087 300269009024 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 300269009025 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 300269009026 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 300269009027 beta-galactosidase; Region: BGL; TIGR03356 300269009028 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 300269009029 classical (c) SDRs; Region: SDR_c; cd05233 300269009030 NAD(P) binding site [chemical binding]; other site 300269009031 active site 300269009032 glycine dehydrogenase; Provisional; Region: PRK05367 300269009033 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 300269009034 tetramer interface [polypeptide binding]; other site 300269009035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009036 catalytic residue [active] 300269009037 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 300269009038 tetramer interface [polypeptide binding]; other site 300269009039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009040 catalytic residue [active] 300269009041 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 300269009042 lipoyl attachment site [posttranslational modification]; other site 300269009043 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 300269009044 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 300269009045 oxidoreductase; Provisional; Region: PRK08013 300269009046 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 300269009047 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 300269009048 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 300269009049 proline aminopeptidase P II; Provisional; Region: PRK10879 300269009050 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 300269009051 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 300269009052 active site 300269009053 hypothetical protein; Reviewed; Region: PRK01736 300269009054 Z-ring-associated protein; Provisional; Region: PRK10972 300269009055 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 300269009056 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 300269009057 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 300269009058 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 300269009059 ligand binding site [chemical binding]; other site 300269009060 NAD binding site [chemical binding]; other site 300269009061 tetramer interface [polypeptide binding]; other site 300269009062 catalytic site [active] 300269009063 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 300269009064 L-serine binding site [chemical binding]; other site 300269009065 ACT domain interface; other site 300269009066 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 300269009067 tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269009068 active site 300269009069 dimer interface [polypeptide binding]; other site 300269009070 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 300269009071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269009072 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 300269009073 putative dimerization interface [polypeptide binding]; other site 300269009074 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 300269009075 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 300269009076 active site 300269009077 substrate binding site [chemical binding]; other site 300269009078 coenzyme B12 binding site [chemical binding]; other site 300269009079 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 300269009080 B12 binding site [chemical binding]; other site 300269009081 cobalt ligand [ion binding]; other site 300269009082 membrane ATPase/protein kinase; Provisional; Region: PRK09435 300269009083 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 300269009084 Walker A; other site 300269009085 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 300269009086 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 300269009087 substrate binding site [chemical binding]; other site 300269009088 oxyanion hole (OAH) forming residues; other site 300269009089 trimer interface [polypeptide binding]; other site 300269009090 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 300269009091 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 300269009092 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 300269009093 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009094 Uncharacterized conserved protein [Function unknown]; Region: COG2968 300269009095 oxidative stress defense protein; Provisional; Region: PRK11087 300269009096 arginine exporter protein; Provisional; Region: PRK09304 300269009097 mechanosensitive channel MscS; Provisional; Region: PRK10334 300269009098 Mechanosensitive ion channel; Region: MS_channel; pfam00924 300269009099 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 300269009100 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 300269009101 active site 300269009102 intersubunit interface [polypeptide binding]; other site 300269009103 zinc binding site [ion binding]; other site 300269009104 Na+ binding site [ion binding]; other site 300269009105 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 300269009106 Phosphoglycerate kinase; Region: PGK; pfam00162 300269009107 substrate binding site [chemical binding]; other site 300269009108 hinge regions; other site 300269009109 ADP binding site [chemical binding]; other site 300269009110 catalytic site [active] 300269009111 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 300269009112 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 300269009113 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 300269009114 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 300269009115 trimer interface [polypeptide binding]; other site 300269009116 putative Zn binding site [ion binding]; other site 300269009117 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 300269009118 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 300269009119 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 300269009120 Walker A/P-loop; other site 300269009121 ATP binding site [chemical binding]; other site 300269009122 Q-loop/lid; other site 300269009123 ABC transporter signature motif; other site 300269009124 Walker B; other site 300269009125 D-loop; other site 300269009126 H-loop/switch region; other site 300269009127 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 300269009128 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 300269009129 Walker A/P-loop; other site 300269009130 ATP binding site [chemical binding]; other site 300269009131 Q-loop/lid; other site 300269009132 ABC transporter signature motif; other site 300269009133 Walker B; other site 300269009134 D-loop; other site 300269009135 H-loop/switch region; other site 300269009136 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 300269009137 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 300269009138 active site 300269009139 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269009140 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 300269009141 active site 300269009142 phosphorylation site [posttranslational modification] 300269009143 transketolase; Reviewed; Region: PRK12753 300269009144 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 300269009145 TPP-binding site [chemical binding]; other site 300269009146 dimer interface [polypeptide binding]; other site 300269009147 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 300269009148 PYR/PP interface [polypeptide binding]; other site 300269009149 dimer interface [polypeptide binding]; other site 300269009150 TPP binding site [chemical binding]; other site 300269009151 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 300269009152 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 300269009153 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 300269009154 agmatinase; Region: agmatinase; TIGR01230 300269009155 oligomer interface [polypeptide binding]; other site 300269009156 putative active site [active] 300269009157 Mn binding site [ion binding]; other site 300269009158 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 300269009159 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 300269009160 dimer interface [polypeptide binding]; other site 300269009161 active site 300269009162 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 300269009163 catalytic residues [active] 300269009164 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 300269009165 Virulence promoting factor; Region: YqgB; pfam11036 300269009166 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 300269009167 S-adenosylmethionine synthetase; Validated; Region: PRK05250 300269009168 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 300269009169 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 300269009170 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 300269009171 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 300269009172 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269009173 putative substrate translocation pore; other site 300269009174 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269009175 hypothetical protein; Provisional; Region: PRK04860 300269009176 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 300269009177 DNA-specific endonuclease I; Provisional; Region: PRK15137 300269009178 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 300269009179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 300269009180 RNA methyltransferase, RsmE family; Region: TIGR00046 300269009181 glutathione synthetase; Provisional; Region: PRK05246 300269009182 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 300269009183 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 300269009184 hypothetical protein; Validated; Region: PRK00228 300269009185 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 300269009186 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 300269009187 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 300269009188 Walker A motif; other site 300269009189 ATP binding site [chemical binding]; other site 300269009190 Walker B motif; other site 300269009191 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 300269009192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 300269009193 catalytic residue [active] 300269009194 YGGT family; Region: YGGT; pfam02325 300269009195 YGGT family; Region: YGGT; pfam02325 300269009196 hypothetical protein; Validated; Region: PRK05090 300269009197 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 300269009198 active site 300269009199 dimerization interface [polypeptide binding]; other site 300269009200 HemN family oxidoreductase; Provisional; Region: PRK05660 300269009201 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 300269009202 FeS/SAM binding site; other site 300269009203 HemN C-terminal domain; Region: HemN_C; pfam06969 300269009204 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 300269009205 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 300269009206 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 300269009207 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009208 Homeodomain-like domain; Region: HTH_23; pfam13384 300269009209 Winged helix-turn helix; Region: HTH_29; pfam13551 300269009210 Homeodomain-like domain; Region: HTH_32; pfam13565 300269009211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269009212 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269009213 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009214 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 300269009215 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 300269009216 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 300269009217 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 300269009218 putative active site [active] 300269009219 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 300269009220 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 300269009221 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 300269009222 S-adenosylmethionine binding site [chemical binding]; other site 300269009223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 300269009224 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 300269009225 non-specific DNA binding site [nucleotide binding]; other site 300269009226 salt bridge; other site 300269009227 sequence-specific DNA binding site [nucleotide binding]; other site 300269009228 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 300269009229 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 300269009230 active site 300269009231 FMN binding site [chemical binding]; other site 300269009232 2,4-decadienoyl-CoA binding site; other site 300269009233 catalytic residue [active] 300269009234 4Fe-4S cluster binding site [ion binding]; other site 300269009235 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 300269009236 alpha-glucosidase; Provisional; Region: PRK10137 300269009237 Protein of unknown function, DUF608; Region: DUF608; pfam04685 300269009238 Trehalase; Region: Trehalase; cl17346 300269009239 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009240 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009241 Homeodomain-like domain; Region: HTH_23; pfam13384 300269009242 Winged helix-turn helix; Region: HTH_29; pfam13551 300269009243 Homeodomain-like domain; Region: HTH_32; pfam13565 300269009244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269009245 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269009246 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 300269009247 TMP-binding site; other site 300269009248 ATP-binding site [chemical binding]; other site 300269009249 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 300269009250 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 300269009251 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 300269009252 CHAP domain; Region: CHAP; pfam05257 300269009253 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 300269009254 putative S-transferase; Provisional; Region: PRK11752 300269009255 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 300269009256 C-terminal domain interface [polypeptide binding]; other site 300269009257 GSH binding site (G-site) [chemical binding]; other site 300269009258 dimer interface [polypeptide binding]; other site 300269009259 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 300269009260 dimer interface [polypeptide binding]; other site 300269009261 N-terminal domain interface [polypeptide binding]; other site 300269009262 active site 300269009263 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 300269009264 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 300269009265 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 300269009266 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 300269009267 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 300269009268 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 300269009269 putative substrate-binding site; other site 300269009270 nickel binding site [ion binding]; other site 300269009271 hydrogenase 2 large subunit; Provisional; Region: PRK10467 300269009272 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 300269009273 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 300269009274 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 300269009275 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 300269009276 4Fe-4S binding domain; Region: Fer4_6; pfam12837 300269009277 hydrogenase 2 small subunit; Provisional; Region: PRK10468 300269009278 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 300269009279 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 300269009280 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 300269009281 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 300269009282 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 300269009283 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 300269009284 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269009285 active site 300269009286 catalytic tetrad [active] 300269009287 hypothetical protein; Provisional; Region: PRK05208 300269009288 oxidoreductase; Provisional; Region: PRK07985 300269009289 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 300269009290 NAD binding site [chemical binding]; other site 300269009291 metal binding site [ion binding]; metal-binding site 300269009292 active site 300269009293 biopolymer transport protein ExbD; Provisional; Region: PRK11267 300269009294 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 300269009295 biopolymer transport protein ExbB; Provisional; Region: PRK10414 300269009296 cystathionine beta-lyase; Provisional; Region: PRK08114 300269009297 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 300269009298 homodimer interface [polypeptide binding]; other site 300269009299 substrate-cofactor binding pocket; other site 300269009300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009301 catalytic residue [active] 300269009302 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 300269009303 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 300269009304 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 300269009305 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 300269009306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269009307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269009308 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 300269009309 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 300269009310 dimer interface [polypeptide binding]; other site 300269009311 active site 300269009312 metal binding site [ion binding]; metal-binding site 300269009313 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 300269009314 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 300269009315 active site 300269009316 catalytic tetrad [active] 300269009317 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 300269009318 putative outer membrane lipoprotein; Provisional; Region: PRK09973 300269009319 hypothetical protein; Provisional; Region: PRK01254 300269009320 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 300269009321 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 300269009322 FtsI repressor; Provisional; Region: PRK10883 300269009323 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 300269009324 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 300269009325 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 300269009326 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 300269009327 putative acyl-acceptor binding pocket; other site 300269009328 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 300269009329 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 300269009330 CAP-like domain; other site 300269009331 active site 300269009332 primary dimer interface [polypeptide binding]; other site 300269009333 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 300269009334 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 300269009335 TIGR00156 family protein; Region: TIGR00156 300269009336 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 300269009337 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 300269009338 active site 300269009339 phosphorylation site [posttranslational modification] 300269009340 intermolecular recognition site; other site 300269009341 dimerization interface [polypeptide binding]; other site 300269009342 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 300269009343 DNA binding site [nucleotide binding] 300269009344 sensor protein QseC; Provisional; Region: PRK10337 300269009345 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 300269009346 dimer interface [polypeptide binding]; other site 300269009347 phosphorylation site [posttranslational modification] 300269009348 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 300269009349 ATP binding site [chemical binding]; other site 300269009350 Mg2+ binding site [ion binding]; other site 300269009351 G-X-G motif; other site 300269009352 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 300269009353 Uncharacterized conserved protein [Function unknown]; Region: COG1359 300269009354 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 300269009355 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 300269009356 ATP binding site [chemical binding]; other site 300269009357 Mg2+ binding site [ion binding]; other site 300269009358 G-X-G motif; other site 300269009359 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 300269009360 anchoring element; other site 300269009361 dimer interface [polypeptide binding]; other site 300269009362 ATP binding site [chemical binding]; other site 300269009363 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 300269009364 active site 300269009365 metal binding site [ion binding]; metal-binding site 300269009366 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 300269009367 esterase YqiA; Provisional; Region: PRK11071 300269009368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 300269009369 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 300269009370 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 300269009371 active site 300269009372 metal binding site [ion binding]; metal-binding site 300269009373 hexamer interface [polypeptide binding]; other site 300269009374 putative dehydrogenase; Provisional; Region: PRK11039 300269009375 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 300269009376 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 300269009377 dimer interface [polypeptide binding]; other site 300269009378 ADP-ribose binding site [chemical binding]; other site 300269009379 active site 300269009380 nudix motif; other site 300269009381 metal binding site [ion binding]; metal-binding site 300269009382 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 300269009383 hypothetical protein; Provisional; Region: PRK11653 300269009384 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 300269009385 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 300269009386 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 300269009387 putative active site [active] 300269009388 metal binding site [ion binding]; metal-binding site 300269009389 zinc transporter ZupT; Provisional; Region: PRK04201 300269009390 ZIP Zinc transporter; Region: Zip; pfam02535 300269009391 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 300269009392 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 300269009393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 300269009394 putative fimbrial protein; Provisional; Region: PRK09733 300269009395 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269009396 HTH-like domain; Region: HTH_21; pfam13276 300269009397 Integrase core domain; Region: rve; pfam00665 300269009398 Integrase core domain; Region: rve_3; pfam13683 300269009399 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 300269009400 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269009401 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 300269009402 Fimbrial protein; Region: Fimbrial; pfam00419 300269009403 Homeodomain-like domain; Region: HTH_23; pfam13384 300269009404 Winged helix-turn helix; Region: HTH_29; pfam13551 300269009405 Homeodomain-like domain; Region: HTH_32; pfam13565 300269009406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269009407 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269009408 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 300269009409 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 300269009410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 300269009411 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 300269009412 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 300269009413 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 300269009414 putative ribose interaction site [chemical binding]; other site 300269009415 putative ADP binding site [chemical binding]; other site 300269009416 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 300269009417 active site 300269009418 nucleotide binding site [chemical binding]; other site 300269009419 HIGH motif; other site 300269009420 KMSKS motif; other site 300269009421 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 300269009422 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 300269009423 metal binding triad; other site 300269009424 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 300269009425 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 300269009426 metal binding triad; other site 300269009427 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 300269009428 Uncharacterized conserved protein [Function unknown]; Region: COG3025 300269009429 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 300269009430 putative active site [active] 300269009431 putative metal binding residues [ion binding]; other site 300269009432 signature motif; other site 300269009433 putative triphosphate binding site [ion binding]; other site 300269009434 CHAD domain; Region: CHAD; pfam05235 300269009435 SH3 domain-containing protein; Provisional; Region: PRK10884 300269009436 Bacterial SH3 domain homologues; Region: SH3b; smart00287 300269009437 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 300269009438 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 300269009439 active site 300269009440 NTP binding site [chemical binding]; other site 300269009441 metal binding triad [ion binding]; metal-binding site 300269009442 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 300269009443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 300269009444 Zn2+ binding site [ion binding]; other site 300269009445 Mg2+ binding site [ion binding]; other site 300269009446 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 300269009447 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 300269009448 homooctamer interface [polypeptide binding]; other site 300269009449 active site 300269009450 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 300269009451 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 300269009452 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 300269009453 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 300269009454 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 300269009455 transmembrane helices; other site 300269009456 UGMP family protein; Validated; Region: PRK09604 300269009457 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 300269009458 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 300269009459 DNA primase; Validated; Region: dnaG; PRK05667 300269009460 CHC2 zinc finger; Region: zf-CHC2; pfam01807 300269009461 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 300269009462 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 300269009463 active site 300269009464 metal binding site [ion binding]; metal-binding site 300269009465 interdomain interaction site; other site 300269009466 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 300269009467 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 300269009468 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 300269009469 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 300269009470 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 300269009471 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 300269009472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269009473 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 300269009474 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 300269009475 DNA binding residues [nucleotide binding] 300269009476 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269009477 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269009478 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269009479 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 300269009480 active site 300269009481 SUMO-1 interface [polypeptide binding]; other site 300269009482 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 300269009483 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 300269009484 FAD binding pocket [chemical binding]; other site 300269009485 FAD binding motif [chemical binding]; other site 300269009486 phosphate binding motif [ion binding]; other site 300269009487 NAD binding pocket [chemical binding]; other site 300269009488 Predicted transcriptional regulators [Transcription]; Region: COG1695 300269009489 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 300269009490 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 300269009491 PAS fold; Region: PAS_3; pfam08447 300269009492 putative active site [active] 300269009493 heme pocket [chemical binding]; other site 300269009494 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 300269009495 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 300269009496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 300269009497 dimer interface [polypeptide binding]; other site 300269009498 putative CheW interface [polypeptide binding]; other site 300269009499 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 300269009500 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 300269009501 inhibitor-cofactor binding pocket; inhibition site 300269009502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009503 catalytic residue [active] 300269009504 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 300269009505 dimer interface [polypeptide binding]; other site 300269009506 putative tRNA-binding site [nucleotide binding]; other site 300269009507 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 300269009508 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269009509 DNA binding site [nucleotide binding] 300269009510 domain linker motif; other site 300269009511 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 300269009512 putative dimerization interface [polypeptide binding]; other site 300269009513 putative ligand binding site [chemical binding]; other site 300269009514 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269009515 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269009516 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269009517 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 300269009518 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 300269009519 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 300269009520 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 300269009521 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 300269009522 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 300269009523 inner membrane transporter YjeM; Provisional; Region: PRK15238 300269009524 Homeodomain-like domain; Region: HTH_23; pfam13384 300269009525 Winged helix-turn helix; Region: HTH_29; pfam13551 300269009526 Homeodomain-like domain; Region: HTH_32; pfam13565 300269009527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269009528 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269009529 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 300269009530 TMP-binding site; other site 300269009531 ATP-binding site [chemical binding]; other site 300269009532 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 300269009533 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 300269009534 active site 300269009535 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 300269009536 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 300269009537 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269009538 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 300269009539 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 300269009540 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 300269009541 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 300269009542 Autotransporter beta-domain; Region: Autotransporter; pfam03797 300269009543 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 300269009544 Part of AAA domain; Region: AAA_19; pfam13245 300269009545 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 300269009546 AAA domain; Region: AAA_12; pfam13087 300269009547 C-terminal domain of Escherichia coli uncharacterized protein yjhR and similar proteins; Region: PLDc_yjhR_C_like; cd09118 300269009548 putative active site [active] 300269009549 catalytic site [active] 300269009550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269009551 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269009552 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269009553 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 300269009554 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 300269009555 Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276 300269009556 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 300269009557 homodimer interface [polypeptide binding]; other site 300269009558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009559 catalytic residue [active] 300269009560 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 300269009561 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269009562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269009563 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269009564 nucleoside transporter; Region: 2A0110; TIGR00889 300269009565 murein transglycosylase C; Provisional; Region: mltC; PRK11671 300269009566 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 300269009567 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 300269009568 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269009569 catalytic residue [active] 300269009570 oxidative damage protection protein; Provisional; Region: PRK05408 300269009571 adenine DNA glycosylase; Provisional; Region: PRK10880 300269009572 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 300269009573 minor groove reading motif; other site 300269009574 helix-hairpin-helix signature motif; other site 300269009575 substrate binding pocket [chemical binding]; other site 300269009576 active site 300269009577 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 300269009578 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 300269009579 DNA binding and oxoG recognition site [nucleotide binding] 300269009580 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 300269009581 hypothetical protein; Provisional; Region: PRK11702 300269009582 hypothetical protein; Provisional; Region: PRK10626 300269009583 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 300269009584 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 300269009585 homodimer interface [polypeptide binding]; other site 300269009586 active site 300269009587 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009588 serine/threonine transporter SstT; Provisional; Region: PRK13628 300269009589 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 300269009590 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 300269009591 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 300269009592 galactarate dehydratase; Region: galactar-dH20; TIGR03248 300269009593 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 300269009594 Glucuronate isomerase; Region: UxaC; pfam02614 300269009595 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 300269009596 CblD like pilus biogenesis initiator; Region: CblD; cl06460 300269009597 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 300269009598 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269009599 Homeodomain-like domain; Region: HTH_23; pfam13384 300269009600 Winged helix-turn helix; Region: HTH_29; pfam13551 300269009601 Homeodomain-like domain; Region: HTH_32; pfam13565 300269009602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269009603 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269009604 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 300269009605 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269009606 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 300269009607 putative fimbrial protein TcfA; Provisional; Region: PRK15308 300269009608 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 300269009609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269009610 DNA-binding site [nucleotide binding]; DNA binding site 300269009611 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269009612 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 300269009613 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 300269009614 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 300269009615 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 300269009616 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 300269009617 Predicted membrane protein [Function unknown]; Region: COG5393 300269009618 YqjK-like protein; Region: YqjK; pfam13997 300269009619 Predicted membrane protein [Function unknown]; Region: COG2259 300269009620 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 300269009621 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 300269009622 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 300269009623 putative dimer interface [polypeptide binding]; other site 300269009624 N-terminal domain interface [polypeptide binding]; other site 300269009625 putative substrate binding pocket (H-site) [chemical binding]; other site 300269009626 Predicted membrane protein [Function unknown]; Region: COG3152 300269009627 Predicted membrane protein [Function unknown]; Region: COG3152 300269009628 Pirin-related protein [General function prediction only]; Region: COG1741 300269009629 Pirin; Region: Pirin; pfam02678 300269009630 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 300269009631 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 300269009632 serine transporter; Region: stp; TIGR00814 300269009633 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 300269009634 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 300269009635 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 300269009636 homotrimer interaction site [polypeptide binding]; other site 300269009637 putative active site [active] 300269009638 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 300269009639 Pyruvate formate lyase 1; Region: PFL1; cd01678 300269009640 coenzyme A binding site [chemical binding]; other site 300269009641 active site 300269009642 catalytic residues [active] 300269009643 glycine loop; other site 300269009644 propionate/acetate kinase; Provisional; Region: PRK12379 300269009645 Acetokinase family; Region: Acetate_kinase; cl17229 300269009646 threonine/serine transporter TdcC; Provisional; Region: PRK13629 300269009647 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 300269009648 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 300269009649 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 300269009650 tetramer interface [polypeptide binding]; other site 300269009651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269009652 catalytic residue [active] 300269009653 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 300269009654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269009655 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 300269009656 putative substrate binding pocket [chemical binding]; other site 300269009657 putative dimerization interface [polypeptide binding]; other site 300269009658 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 300269009659 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009660 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 300269009661 glycerate kinase I; Provisional; Region: PRK10342 300269009662 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 300269009663 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 300269009664 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 300269009665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269009666 D-galactonate transporter; Region: 2A0114; TIGR00893 300269009667 putative substrate translocation pore; other site 300269009668 galactarate dehydratase; Region: galactar-dH20; TIGR03248 300269009669 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 300269009670 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 300269009671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269009672 Transposase; Region: HTH_Tnp_1; pfam01527 300269009673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269009674 Integrase core domain; Region: rve; pfam00665 300269009675 Integrase core domain; Region: rve_3; pfam13683 300269009676 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 300269009677 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269009678 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 300269009679 PapC N-terminal domain; Region: PapC_N; pfam13954 300269009680 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269009681 PapC C-terminal domain; Region: PapC_C; pfam13953 300269009682 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269009683 HTH-like domain; Region: HTH_21; pfam13276 300269009684 Integrase core domain; Region: rve; pfam00665 300269009685 Integrase core domain; Region: rve_3; pfam13683 300269009686 Fimbrial protein; Region: Fimbrial; pfam00419 300269009687 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 300269009688 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 300269009689 putative SAM binding site [chemical binding]; other site 300269009690 putative homodimer interface [polypeptide binding]; other site 300269009691 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 300269009692 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 300269009693 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 300269009694 putative ligand binding site [chemical binding]; other site 300269009695 TIGR00252 family protein; Region: TIGR00252 300269009696 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 300269009697 dimer interface [polypeptide binding]; other site 300269009698 active site 300269009699 outer membrane lipoprotein; Provisional; Region: PRK11023 300269009700 BON domain; Region: BON; pfam04972 300269009701 BON domain; Region: BON; pfam04972 300269009702 Predicted permease; Region: DUF318; pfam03773 300269009703 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 300269009704 NADH(P)-binding; Region: NAD_binding_10; pfam13460 300269009705 NAD binding site [chemical binding]; other site 300269009706 active site 300269009707 intracellular protease, PfpI family; Region: PfpI; TIGR01382 300269009708 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 300269009709 proposed catalytic triad [active] 300269009710 conserved cys residue [active] 300269009711 hypothetical protein; Provisional; Region: PRK03467 300269009712 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 300269009713 GIY-YIG motif/motif A; other site 300269009714 putative active site [active] 300269009715 putative metal binding site [ion binding]; other site 300269009716 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 300269009717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269009718 Coenzyme A binding pocket [chemical binding]; other site 300269009719 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 300269009720 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 300269009721 Peptidase family U32; Region: Peptidase_U32; pfam01136 300269009722 putative protease; Provisional; Region: PRK15447 300269009723 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 300269009724 hypothetical protein; Provisional; Region: PRK10508 300269009725 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 300269009726 tryptophan permease; Provisional; Region: PRK10483 300269009727 aromatic amino acid transport protein; Region: araaP; TIGR00837 300269009728 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 300269009729 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 300269009730 ATP binding site [chemical binding]; other site 300269009731 Mg++ binding site [ion binding]; other site 300269009732 motif III; other site 300269009733 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 300269009734 nucleotide binding region [chemical binding]; other site 300269009735 ATP-binding site [chemical binding]; other site 300269009736 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 300269009737 putative RNA binding site [nucleotide binding]; other site 300269009738 lipoprotein NlpI; Provisional; Region: PRK11189 300269009739 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 300269009740 binding surface 300269009741 TPR motif; other site 300269009742 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 300269009743 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 300269009744 RNase E interface [polypeptide binding]; other site 300269009745 trimer interface [polypeptide binding]; other site 300269009746 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 300269009747 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 300269009748 RNase E interface [polypeptide binding]; other site 300269009749 trimer interface [polypeptide binding]; other site 300269009750 active site 300269009751 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 300269009752 putative nucleic acid binding region [nucleotide binding]; other site 300269009753 G-X-X-G motif; other site 300269009754 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 300269009755 RNA binding site [nucleotide binding]; other site 300269009756 domain interface; other site 300269009757 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 300269009758 16S/18S rRNA binding site [nucleotide binding]; other site 300269009759 S13e-L30e interaction site [polypeptide binding]; other site 300269009760 25S rRNA binding site [nucleotide binding]; other site 300269009761 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 300269009762 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 300269009763 RNA binding site [nucleotide binding]; other site 300269009764 active site 300269009765 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 300269009766 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 300269009767 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 300269009768 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 300269009769 translation initiation factor IF-2; Region: IF-2; TIGR00487 300269009770 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 300269009771 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 300269009772 G1 box; other site 300269009773 putative GEF interaction site [polypeptide binding]; other site 300269009774 GTP/Mg2+ binding site [chemical binding]; other site 300269009775 Switch I region; other site 300269009776 G2 box; other site 300269009777 G3 box; other site 300269009778 Switch II region; other site 300269009779 G4 box; other site 300269009780 G5 box; other site 300269009781 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 300269009782 Translation-initiation factor 2; Region: IF-2; pfam11987 300269009783 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 300269009784 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 300269009785 NusA N-terminal domain; Region: NusA_N; pfam08529 300269009786 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 300269009787 RNA binding site [nucleotide binding]; other site 300269009788 homodimer interface [polypeptide binding]; other site 300269009789 NusA-like KH domain; Region: KH_5; pfam13184 300269009790 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 300269009791 G-X-X-G motif; other site 300269009792 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 300269009793 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 300269009794 ribosome maturation protein RimP; Reviewed; Region: PRK00092 300269009795 Sm and related proteins; Region: Sm_like; cl00259 300269009796 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 300269009797 putative oligomer interface [polypeptide binding]; other site 300269009798 putative RNA binding site [nucleotide binding]; other site 300269009799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269009800 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269009801 Integrase core domain; Region: rve; pfam00665 300269009802 Integrase core domain; Region: rve_3; cl15866 300269009803 transposase/IS protein; Provisional; Region: PRK09183 300269009804 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 300269009805 Walker A motif; other site 300269009806 ATP binding site [chemical binding]; other site 300269009807 Walker B motif; other site 300269009808 arginine finger; other site 300269009809 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 300269009810 ANP binding site [chemical binding]; other site 300269009811 Substrate Binding Site II [chemical binding]; other site 300269009812 Substrate Binding Site I [chemical binding]; other site 300269009813 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 300269009814 Sulfatase; Region: Sulfatase; pfam00884 300269009815 Preprotein translocase SecG subunit; Region: SecG; pfam03840 300269009816 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 300269009817 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 300269009818 active site 300269009819 substrate binding site [chemical binding]; other site 300269009820 metal binding site [ion binding]; metal-binding site 300269009821 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 300269009822 dihydropteroate synthase; Region: DHPS; TIGR01496 300269009823 substrate binding pocket [chemical binding]; other site 300269009824 dimer interface [polypeptide binding]; other site 300269009825 inhibitor binding site; inhibition site 300269009826 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 300269009827 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 300269009828 Walker A motif; other site 300269009829 ATP binding site [chemical binding]; other site 300269009830 Walker B motif; other site 300269009831 arginine finger; other site 300269009832 Peptidase family M41; Region: Peptidase_M41; pfam01434 300269009833 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 300269009834 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 300269009835 S-adenosylmethionine binding site [chemical binding]; other site 300269009836 RNA-binding protein YhbY; Provisional; Region: PRK10343 300269009837 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 300269009838 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 300269009839 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 300269009840 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 300269009841 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 300269009842 GTPase CgtA; Reviewed; Region: obgE; PRK12298 300269009843 GTP1/OBG; Region: GTP1_OBG; pfam01018 300269009844 Obg GTPase; Region: Obg; cd01898 300269009845 G1 box; other site 300269009846 GTP/Mg2+ binding site [chemical binding]; other site 300269009847 Switch I region; other site 300269009848 G2 box; other site 300269009849 G3 box; other site 300269009850 Switch II region; other site 300269009851 G4 box; other site 300269009852 G5 box; other site 300269009853 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 300269009854 EamA-like transporter family; Region: EamA; pfam00892 300269009855 EamA-like transporter family; Region: EamA; pfam00892 300269009856 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 300269009857 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 300269009858 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 300269009859 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 300269009860 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 300269009861 substrate binding pocket [chemical binding]; other site 300269009862 chain length determination region; other site 300269009863 substrate-Mg2+ binding site; other site 300269009864 catalytic residues [active] 300269009865 aspartate-rich region 1; other site 300269009866 active site lid residues [active] 300269009867 aspartate-rich region 2; other site 300269009868 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 300269009869 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 300269009870 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 300269009871 hinge; other site 300269009872 active site 300269009873 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 300269009874 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 300269009875 anti sigma factor interaction site; other site 300269009876 regulatory phosphorylation site [posttranslational modification]; other site 300269009877 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 300269009878 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 300269009879 mce related protein; Region: MCE; pfam02470 300269009880 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 300269009881 conserved hypothetical integral membrane protein; Region: TIGR00056 300269009882 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 300269009883 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 300269009884 Walker A/P-loop; other site 300269009885 ATP binding site [chemical binding]; other site 300269009886 Q-loop/lid; other site 300269009887 ABC transporter signature motif; other site 300269009888 Walker B; other site 300269009889 D-loop; other site 300269009890 H-loop/switch region; other site 300269009891 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 300269009892 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 300269009893 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 300269009894 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 300269009895 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 300269009896 putative active site [active] 300269009897 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 300269009898 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 300269009899 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 300269009900 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 300269009901 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 300269009902 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 300269009903 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 300269009904 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 300269009905 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 300269009906 Walker A/P-loop; other site 300269009907 ATP binding site [chemical binding]; other site 300269009908 Q-loop/lid; other site 300269009909 ABC transporter signature motif; other site 300269009910 Walker B; other site 300269009911 D-loop; other site 300269009912 H-loop/switch region; other site 300269009913 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 300269009914 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 300269009915 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 300269009916 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 300269009917 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 300269009918 30S subunit binding site; other site 300269009919 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 300269009920 active site 300269009921 phosphorylation site [posttranslational modification] 300269009922 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 300269009923 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 300269009924 dimerization domain swap beta strand [polypeptide binding]; other site 300269009925 regulatory protein interface [polypeptide binding]; other site 300269009926 active site 300269009927 regulatory phosphorylation site [posttranslational modification]; other site 300269009928 hypothetical protein; Provisional; Region: PRK10345 300269009929 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 300269009930 Transglycosylase; Region: Transgly; cl17702 300269009931 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 300269009932 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 300269009933 conserved cys residue [active] 300269009934 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 300269009935 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 300269009936 putative active site [active] 300269009937 heme pocket [chemical binding]; other site 300269009938 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 300269009939 dimer interface [polypeptide binding]; other site 300269009940 phosphorylation site [posttranslational modification] 300269009941 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 300269009942 ATP binding site [chemical binding]; other site 300269009943 Mg2+ binding site [ion binding]; other site 300269009944 G-X-G motif; other site 300269009945 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 300269009946 active site 300269009947 phosphorylation site [posttranslational modification] 300269009948 intermolecular recognition site; other site 300269009949 dimerization interface [polypeptide binding]; other site 300269009950 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 300269009951 putative binding surface; other site 300269009952 active site 300269009953 radical SAM protein, TIGR01212 family; Region: TIGR01212 300269009954 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 300269009955 FeS/SAM binding site; other site 300269009956 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 300269009957 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 300269009958 active site 300269009959 dimer interface [polypeptide binding]; other site 300269009960 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 300269009961 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 300269009962 active site 300269009963 FMN binding site [chemical binding]; other site 300269009964 substrate binding site [chemical binding]; other site 300269009965 3Fe-4S cluster binding site [ion binding]; other site 300269009966 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 300269009967 domain interface; other site 300269009968 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 300269009969 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269009970 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269009971 Domain of unknown function (DUF386); Region: DUF386; cl01047 300269009972 N-acetylmannosamine kinase; Provisional; Region: PRK05082 300269009973 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 300269009974 nucleotide binding site [chemical binding]; other site 300269009975 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 300269009976 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 300269009977 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 300269009978 putative active site cavity [active] 300269009979 putative sialic acid transporter; Provisional; Region: PRK03893 300269009980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269009981 putative substrate translocation pore; other site 300269009982 N-acetylneuraminate lyase; Region: nanA; TIGR00683 300269009983 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 300269009984 inhibitor site; inhibition site 300269009985 active site 300269009986 dimer interface [polypeptide binding]; other site 300269009987 catalytic residue [active] 300269009988 transcriptional regulator NanR; Provisional; Region: PRK03837 300269009989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269009990 DNA-binding site [nucleotide binding]; DNA binding site 300269009991 FCD domain; Region: FCD; pfam07729 300269009992 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 300269009993 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 300269009994 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 300269009995 stringent starvation protein A; Provisional; Region: sspA; PRK09481 300269009996 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 300269009997 C-terminal domain interface [polypeptide binding]; other site 300269009998 putative GSH binding site (G-site) [chemical binding]; other site 300269009999 dimer interface [polypeptide binding]; other site 300269010000 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 300269010001 dimer interface [polypeptide binding]; other site 300269010002 N-terminal domain interface [polypeptide binding]; other site 300269010003 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 300269010004 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 300269010005 23S rRNA interface [nucleotide binding]; other site 300269010006 L3 interface [polypeptide binding]; other site 300269010007 Predicted ATPase [General function prediction only]; Region: COG1485 300269010008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 300269010009 hypothetical protein; Provisional; Region: PRK11677 300269010010 serine endoprotease; Provisional; Region: PRK10139 300269010011 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 300269010012 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 300269010013 protein binding site [polypeptide binding]; other site 300269010014 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 300269010015 serine endoprotease; Provisional; Region: PRK10898 300269010016 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 300269010017 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 300269010018 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269010019 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269010020 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269010021 malate dehydrogenase; Provisional; Region: PRK05086 300269010022 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 300269010023 NAD binding site [chemical binding]; other site 300269010024 dimerization interface [polypeptide binding]; other site 300269010025 Substrate binding site [chemical binding]; other site 300269010026 arginine repressor; Provisional; Region: PRK05066 300269010027 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 300269010028 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 300269010029 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269010030 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 300269010031 RNAase interaction site [polypeptide binding]; other site 300269010032 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 300269010033 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269010034 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 300269010035 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269010036 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269010037 efflux system membrane protein; Provisional; Region: PRK11594 300269010038 protease TldD; Provisional; Region: tldD; PRK10735 300269010039 hypothetical protein; Provisional; Region: PRK10899 300269010040 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 300269010041 ribonuclease G; Provisional; Region: PRK11712 300269010042 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 300269010043 homodimer interface [polypeptide binding]; other site 300269010044 oligonucleotide binding site [chemical binding]; other site 300269010045 Maf-like protein; Region: Maf; pfam02545 300269010046 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 300269010047 active site 300269010048 dimer interface [polypeptide binding]; other site 300269010049 rod shape-determining protein MreD; Provisional; Region: PRK11060 300269010050 rod shape-determining protein MreC; Region: mreC; TIGR00219 300269010051 rod shape-determining protein MreC; Region: MreC; pfam04085 300269010052 rod shape-determining protein MreB; Provisional; Region: PRK13927 300269010053 MreB and similar proteins; Region: MreB_like; cd10225 300269010054 nucleotide binding site [chemical binding]; other site 300269010055 Mg binding site [ion binding]; other site 300269010056 putative protofilament interaction site [polypeptide binding]; other site 300269010057 RodZ interaction site [polypeptide binding]; other site 300269010058 regulatory protein CsrD; Provisional; Region: PRK11059 300269010059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269010060 metal binding site [ion binding]; metal-binding site 300269010061 active site 300269010062 I-site; other site 300269010063 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 300269010064 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 300269010065 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 300269010066 NADP binding site [chemical binding]; other site 300269010067 dimer interface [polypeptide binding]; other site 300269010068 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 300269010069 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 300269010070 carboxyltransferase (CT) interaction site; other site 300269010071 biotinylation site [posttranslational modification]; other site 300269010072 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 300269010073 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 300269010074 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 300269010075 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 300269010076 hypothetical protein; Provisional; Region: PRK10633 300269010077 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 300269010078 Na binding site [ion binding]; other site 300269010079 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 300269010080 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 300269010081 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 300269010082 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 300269010083 FMN binding site [chemical binding]; other site 300269010084 active site 300269010085 catalytic residues [active] 300269010086 substrate binding site [chemical binding]; other site 300269010087 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 300269010088 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 300269010089 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 300269010090 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 300269010091 DNA methylase; Region: N6_N4_Mtase; pfam01555 300269010092 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 300269010093 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 300269010094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269010095 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 300269010096 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 300269010097 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269010098 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269010099 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010100 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 300269010101 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 300269010102 substrate binding pocket [chemical binding]; other site 300269010103 membrane-bound complex binding site; other site 300269010104 hinge residues; other site 300269010105 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 300269010106 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 300269010107 dimer interface [polypeptide binding]; other site 300269010108 conserved gate region; other site 300269010109 putative PBP binding loops; other site 300269010110 ABC-ATPase subunit interface; other site 300269010111 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 300269010112 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 300269010113 Walker A/P-loop; other site 300269010114 ATP binding site [chemical binding]; other site 300269010115 Q-loop/lid; other site 300269010116 ABC transporter signature motif; other site 300269010117 Walker B; other site 300269010118 D-loop; other site 300269010119 H-loop/switch region; other site 300269010120 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 300269010121 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 300269010122 trimer interface [polypeptide binding]; other site 300269010123 putative metal binding site [ion binding]; other site 300269010124 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 300269010125 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 300269010126 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 300269010127 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 300269010128 shikimate binding site; other site 300269010129 NAD(P) binding site [chemical binding]; other site 300269010130 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 300269010131 hypothetical protein; Validated; Region: PRK03430 300269010132 hypothetical protein; Provisional; Region: PRK10736 300269010133 DNA protecting protein DprA; Region: dprA; TIGR00732 300269010134 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 300269010135 active site 300269010136 catalytic residues [active] 300269010137 metal binding site [ion binding]; metal-binding site 300269010138 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 300269010139 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 300269010140 putative active site [active] 300269010141 substrate binding site [chemical binding]; other site 300269010142 putative cosubstrate binding site; other site 300269010143 catalytic site [active] 300269010144 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 300269010145 substrate binding site [chemical binding]; other site 300269010146 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 300269010147 putative RNA binding site [nucleotide binding]; other site 300269010148 16S rRNA methyltransferase B; Provisional; Region: PRK10901 300269010149 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 300269010150 S-adenosylmethionine binding site [chemical binding]; other site 300269010151 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 300269010152 TrkA-N domain; Region: TrkA_N; pfam02254 300269010153 TrkA-C domain; Region: TrkA_C; pfam02080 300269010154 TrkA-N domain; Region: TrkA_N; pfam02254 300269010155 TrkA-C domain; Region: TrkA_C; pfam02080 300269010156 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 300269010157 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 300269010158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 300269010159 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 300269010160 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 300269010161 DNA binding residues [nucleotide binding] 300269010162 dimer interface [polypeptide binding]; other site 300269010163 metal binding site [ion binding]; metal-binding site 300269010164 hypothetical protein; Provisional; Region: PRK10203 300269010165 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 300269010166 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 300269010167 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 300269010168 alphaNTD homodimer interface [polypeptide binding]; other site 300269010169 alphaNTD - beta interaction site [polypeptide binding]; other site 300269010170 alphaNTD - beta' interaction site [polypeptide binding]; other site 300269010171 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 300269010172 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 300269010173 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 300269010174 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 300269010175 RNA binding surface [nucleotide binding]; other site 300269010176 30S ribosomal protein S11; Validated; Region: PRK05309 300269010177 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 300269010178 30S ribosomal protein S13; Region: bact_S13; TIGR03631 300269010179 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 300269010180 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 300269010181 SecY translocase; Region: SecY; pfam00344 300269010182 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 300269010183 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 300269010184 23S rRNA binding site [nucleotide binding]; other site 300269010185 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 300269010186 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 300269010187 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 300269010188 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 300269010189 23S rRNA interface [nucleotide binding]; other site 300269010190 5S rRNA interface [nucleotide binding]; other site 300269010191 L27 interface [polypeptide binding]; other site 300269010192 L5 interface [polypeptide binding]; other site 300269010193 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 300269010194 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 300269010195 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 300269010196 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 300269010197 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 300269010198 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 300269010199 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 300269010200 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 300269010201 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 300269010202 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 300269010203 RNA binding site [nucleotide binding]; other site 300269010204 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 300269010205 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 300269010206 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 300269010207 23S rRNA interface [nucleotide binding]; other site 300269010208 putative translocon interaction site; other site 300269010209 signal recognition particle (SRP54) interaction site; other site 300269010210 L23 interface [polypeptide binding]; other site 300269010211 trigger factor interaction site; other site 300269010212 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 300269010213 23S rRNA interface [nucleotide binding]; other site 300269010214 5S rRNA interface [nucleotide binding]; other site 300269010215 putative antibiotic binding site [chemical binding]; other site 300269010216 L25 interface [polypeptide binding]; other site 300269010217 L27 interface [polypeptide binding]; other site 300269010218 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 300269010219 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 300269010220 G-X-X-G motif; other site 300269010221 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 300269010222 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 300269010223 protein-rRNA interface [nucleotide binding]; other site 300269010224 putative translocon binding site; other site 300269010225 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 300269010226 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 300269010227 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 300269010228 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 300269010229 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 300269010230 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 300269010231 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 300269010232 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 300269010233 protein secretion protein GspB; Provisional; Region: PRK09697 300269010234 transposase/IS protein; Provisional; Region: PRK09183 300269010235 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 300269010236 Walker A motif; other site 300269010237 ATP binding site [chemical binding]; other site 300269010238 Walker B motif; other site 300269010239 arginine finger; other site 300269010240 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269010241 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269010242 Integrase core domain; Region: rve; pfam00665 300269010243 Integrase core domain; Region: rve_3; cl15866 300269010244 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010245 elongation factor Tu; Reviewed; Region: PRK00049 300269010246 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 300269010247 G1 box; other site 300269010248 GEF interaction site [polypeptide binding]; other site 300269010249 GTP/Mg2+ binding site [chemical binding]; other site 300269010250 Switch I region; other site 300269010251 G2 box; other site 300269010252 G3 box; other site 300269010253 Switch II region; other site 300269010254 G4 box; other site 300269010255 G5 box; other site 300269010256 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 300269010257 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 300269010258 Antibiotic Binding Site [chemical binding]; other site 300269010259 elongation factor G; Reviewed; Region: PRK00007 300269010260 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 300269010261 G1 box; other site 300269010262 putative GEF interaction site [polypeptide binding]; other site 300269010263 GTP/Mg2+ binding site [chemical binding]; other site 300269010264 Switch I region; other site 300269010265 G2 box; other site 300269010266 G3 box; other site 300269010267 Switch II region; other site 300269010268 G4 box; other site 300269010269 G5 box; other site 300269010270 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 300269010271 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 300269010272 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 300269010273 30S ribosomal protein S7; Validated; Region: PRK05302 300269010274 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 300269010275 S17 interaction site [polypeptide binding]; other site 300269010276 S8 interaction site; other site 300269010277 16S rRNA interaction site [nucleotide binding]; other site 300269010278 streptomycin interaction site [chemical binding]; other site 300269010279 23S rRNA interaction site [nucleotide binding]; other site 300269010280 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 300269010281 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 300269010282 sulfur relay protein TusC; Validated; Region: PRK00211 300269010283 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 300269010284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 300269010285 YheO-like PAS domain; Region: PAS_6; pfam08348 300269010286 HTH domain; Region: HTH_22; pfam13309 300269010287 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 300269010288 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 300269010289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 300269010290 phi X174 lysis protein; Provisional; Region: PRK02793 300269010291 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 300269010292 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 300269010293 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 300269010294 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 300269010295 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 300269010296 TrkA-N domain; Region: TrkA_N; pfam02254 300269010297 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 300269010298 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 300269010299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269010300 Walker A/P-loop; other site 300269010301 ATP binding site [chemical binding]; other site 300269010302 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269010303 ABC transporter signature motif; other site 300269010304 Walker B; other site 300269010305 D-loop; other site 300269010306 ABC transporter; Region: ABC_tran_2; pfam12848 300269010307 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269010308 putative hydrolase; Provisional; Region: PRK10985 300269010309 hypothetical protein; Provisional; Region: PRK04966 300269010310 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 300269010311 active site 300269010312 hypothetical protein; Provisional; Region: PRK10738 300269010313 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 300269010314 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 300269010315 ligand binding site [chemical binding]; other site 300269010316 flexible hinge region; other site 300269010317 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 300269010318 putative switch regulator; other site 300269010319 non-specific DNA interactions [nucleotide binding]; other site 300269010320 DNA binding site [nucleotide binding] 300269010321 sequence specific DNA binding site [nucleotide binding]; other site 300269010322 putative cAMP binding site [chemical binding]; other site 300269010323 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 300269010324 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 300269010325 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269010326 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 300269010327 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 300269010328 inhibitor-cofactor binding pocket; inhibition site 300269010329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269010330 catalytic residue [active] 300269010331 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 300269010332 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 300269010333 glutamine binding [chemical binding]; other site 300269010334 catalytic triad [active] 300269010335 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 300269010336 cell filamentation protein Fic; Provisional; Region: PRK10347 300269010337 hypothetical protein; Provisional; Region: PRK10204 300269010338 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 300269010339 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 300269010340 substrate binding site [chemical binding]; other site 300269010341 putative transporter; Provisional; Region: PRK03699 300269010342 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010343 putative substrate translocation pore; other site 300269010344 nitrite reductase subunit NirD; Provisional; Region: PRK14989 300269010345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269010346 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 300269010347 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 300269010348 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 300269010349 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 300269010350 nitrite transporter NirC; Provisional; Region: PRK11562 300269010351 siroheme synthase; Provisional; Region: cysG; PRK10637 300269010352 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 300269010353 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 300269010354 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 300269010355 active site 300269010356 SAM binding site [chemical binding]; other site 300269010357 homodimer interface [polypeptide binding]; other site 300269010358 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 300269010359 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010360 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 300269010361 hypothetical protein; Provisional; Region: PHA02764 300269010362 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 300269010363 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 300269010364 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 300269010365 dimer interface [polypeptide binding]; other site 300269010366 active site 300269010367 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 300269010368 DNA interaction; other site 300269010369 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 300269010370 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269010371 substrate binding site [chemical binding]; other site 300269010372 ATP binding site [chemical binding]; other site 300269010373 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 300269010374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269010375 DNA-binding site [nucleotide binding]; DNA binding site 300269010376 UTRA domain; Region: UTRA; pfam07702 300269010377 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 300269010378 Protein of unknown function; Region: YhfT; pfam10797 300269010379 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 300269010380 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 300269010381 active site 300269010382 substrate binding pocket [chemical binding]; other site 300269010383 homodimer interaction site [polypeptide binding]; other site 300269010384 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 300269010385 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 300269010386 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 300269010387 active site 300269010388 HIGH motif; other site 300269010389 dimer interface [polypeptide binding]; other site 300269010390 KMSKS motif; other site 300269010391 phosphoglycolate phosphatase; Provisional; Region: PRK13222 300269010392 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 300269010393 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 300269010394 motif II; other site 300269010395 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 300269010396 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 300269010397 substrate binding site [chemical binding]; other site 300269010398 hexamer interface [polypeptide binding]; other site 300269010399 metal binding site [ion binding]; metal-binding site 300269010400 DNA adenine methylase; Provisional; Region: PRK10904 300269010401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 300269010402 cell division protein DamX; Validated; Region: PRK10905 300269010403 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 300269010404 active site 300269010405 dimer interface [polypeptide binding]; other site 300269010406 metal binding site [ion binding]; metal-binding site 300269010407 shikimate kinase; Reviewed; Region: aroK; PRK00131 300269010408 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 300269010409 ADP binding site [chemical binding]; other site 300269010410 magnesium binding site [ion binding]; other site 300269010411 putative shikimate binding site; other site 300269010412 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 300269010413 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 300269010414 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 300269010415 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 300269010416 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 300269010417 Transglycosylase; Region: Transgly; pfam00912 300269010418 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 300269010419 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 300269010420 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 300269010421 ADP-ribose binding site [chemical binding]; other site 300269010422 dimer interface [polypeptide binding]; other site 300269010423 active site 300269010424 nudix motif; other site 300269010425 metal binding site [ion binding]; metal-binding site 300269010426 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 300269010427 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 300269010428 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 300269010429 motif II; other site 300269010430 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 300269010431 RNA binding surface [nucleotide binding]; other site 300269010432 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 300269010433 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 300269010434 dimerization interface [polypeptide binding]; other site 300269010435 domain crossover interface; other site 300269010436 redox-dependent activation switch; other site 300269010437 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 300269010438 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 300269010439 active site 300269010440 substrate-binding site [chemical binding]; other site 300269010441 metal-binding site [ion binding] 300269010442 ATP binding site [chemical binding]; other site 300269010443 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 300269010444 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 300269010445 dimerization interface [polypeptide binding]; other site 300269010446 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 300269010447 dimer interface [polypeptide binding]; other site 300269010448 phosphorylation site [posttranslational modification] 300269010449 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 300269010450 ATP binding site [chemical binding]; other site 300269010451 G-X-G motif; other site 300269010452 osmolarity response regulator; Provisional; Region: ompR; PRK09468 300269010453 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 300269010454 active site 300269010455 phosphorylation site [posttranslational modification] 300269010456 intermolecular recognition site; other site 300269010457 dimerization interface [polypeptide binding]; other site 300269010458 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 300269010459 DNA binding site [nucleotide binding] 300269010460 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 300269010461 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 300269010462 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 300269010463 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 300269010464 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 300269010465 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 300269010466 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 300269010467 RNA binding site [nucleotide binding]; other site 300269010468 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 300269010469 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 300269010470 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 300269010471 G1 box; other site 300269010472 GTP/Mg2+ binding site [chemical binding]; other site 300269010473 Switch I region; other site 300269010474 G2 box; other site 300269010475 G3 box; other site 300269010476 Switch II region; other site 300269010477 G4 box; other site 300269010478 G5 box; other site 300269010479 Nucleoside recognition; Region: Gate; pfam07670 300269010480 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 300269010481 Nucleoside recognition; Region: Gate; pfam07670 300269010482 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 300269010483 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010484 carboxylesterase BioH; Provisional; Region: PRK10349 300269010485 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 300269010486 DNA utilization protein GntX; Provisional; Region: PRK11595 300269010487 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269010488 active site 300269010489 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 300269010490 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 300269010491 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 300269010492 high-affinity gluconate transporter; Provisional; Region: PRK14984 300269010493 gluconate transporter; Region: gntP; TIGR00791 300269010494 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 300269010495 4-alpha-glucanotransferase; Region: malQ; TIGR00217 300269010496 maltodextrin phosphorylase; Provisional; Region: PRK14985 300269010497 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 300269010498 homodimer interface [polypeptide binding]; other site 300269010499 active site pocket [active] 300269010500 transcriptional regulator MalT; Provisional; Region: PRK04841 300269010501 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 300269010502 DNA binding residues [nucleotide binding] 300269010503 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 300269010504 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 300269010505 putative active site [active] 300269010506 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 300269010507 hypothetical protein; Reviewed; Region: PRK09588 300269010508 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010509 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 300269010510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010511 putative substrate translocation pore; other site 300269010512 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 300269010513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269010514 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 300269010515 substrate binding pocket [chemical binding]; other site 300269010516 dimerization interface [polypeptide binding]; other site 300269010517 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 300269010518 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 300269010519 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 300269010520 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 300269010521 active site 300269010522 motif I; other site 300269010523 motif II; other site 300269010524 putative inner membrane protein; Provisional; Region: PRK09823 300269010525 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010526 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010527 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269010528 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269010529 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269010530 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269010531 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269010532 trehalase; Provisional; Region: treF; PRK13270 300269010533 Trehalase; Region: Trehalase; pfam01204 300269010534 Haem-binding domain; Region: Haem_bd; pfam14376 300269010535 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 300269010536 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 300269010537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269010538 catalytic residue [active] 300269010539 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 300269010540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269010541 transcriptional regulator YdeO; Provisional; Region: PRK09940 300269010542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269010543 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 300269010544 Protein export membrane protein; Region: SecD_SecF; cl14618 300269010545 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 300269010546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269010547 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269010548 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 300269010549 pyruvate kinase; Provisional; Region: PRK05826 300269010550 acid-resistance membrane protein; Provisional; Region: PRK10209 300269010551 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 300269010552 acid-resistance protein; Provisional; Region: PRK10208 300269010553 acid-resistance protein; Provisional; Region: hdeB; PRK11566 300269010554 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 300269010555 MgtC family; Region: MgtC; pfam02308 300269010556 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 300269010557 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 300269010558 DNA binding residues [nucleotide binding] 300269010559 dimerization interface [polypeptide binding]; other site 300269010560 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 300269010561 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010562 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269010563 HTH-like domain; Region: HTH_21; pfam13276 300269010564 Integrase core domain; Region: rve; pfam00665 300269010565 Integrase core domain; Region: rve_3; pfam13683 300269010566 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269010567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269010568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269010569 Integrase core domain; Region: rve; pfam00665 300269010570 Integrase core domain; Region: rve_3; pfam13683 300269010571 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269010572 Transposase; Region: HTH_Tnp_1; pfam01527 300269010573 Predicted permease; Region: DUF318; cl17795 300269010574 transposase/IS protein; Provisional; Region: PRK09183 300269010575 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 300269010576 Walker A motif; other site 300269010577 ATP binding site [chemical binding]; other site 300269010578 Walker B motif; other site 300269010579 arginine finger; other site 300269010580 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269010581 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269010582 Integrase core domain; Region: rve; pfam00665 300269010583 Integrase core domain; Region: rve_3; cl15866 300269010584 HTH-like domain; Region: HTH_21; pfam13276 300269010585 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269010586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269010587 Transposase; Region: HTH_Tnp_1; cl17663 300269010588 HTH-like domain; Region: HTH_21; pfam13276 300269010589 Integrase core domain; Region: rve; pfam00665 300269010590 Integrase core domain; Region: rve; pfam00665 300269010591 Integrase core domain; Region: rve_3; cl15866 300269010592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269010593 Transposase; Region: HTH_Tnp_1; pfam01527 300269010594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269010595 Integrase core domain; Region: rve; pfam00665 300269010596 Integrase core domain; Region: rve_3; pfam13683 300269010597 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269010598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269010599 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269010600 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269010602 putative substrate translocation pore; other site 300269010603 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 300269010604 IucA / IucC family; Region: IucA_IucC; pfam04183 300269010605 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 300269010606 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 300269010607 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 300269010608 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 300269010609 IucA / IucC family; Region: IucA_IucC; pfam04183 300269010610 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 300269010611 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 300269010612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269010613 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 300269010614 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 300269010615 N-terminal plug; other site 300269010616 ligand-binding site [chemical binding]; other site 300269010617 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010618 putative transposase OrfB; Reviewed; Region: PHA02517 300269010619 HTH-like domain; Region: HTH_21; pfam13276 300269010620 Integrase core domain; Region: rve; pfam00665 300269010621 Integrase core domain; Region: rve_3; pfam13683 300269010622 HTH-like domain; Region: HTH_21; pfam13276 300269010623 Integrase core domain; Region: rve; pfam00665 300269010624 HTH-like domain; Region: HTH_21; pfam13276 300269010625 Integrase core domain; Region: rve; pfam00665 300269010626 Integrase core domain; Region: rve; pfam00665 300269010627 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010628 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 300269010629 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 300269010630 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010631 putative substrate translocation pore; other site 300269010632 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 300269010633 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010634 cryptic adenine deaminase; Provisional; Region: PRK10027 300269010635 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 300269010636 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 300269010637 active site 300269010638 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 300269010639 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 300269010640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010641 putative substrate translocation pore; other site 300269010642 regulatory protein UhpC; Provisional; Region: PRK11663 300269010643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010644 putative substrate translocation pore; other site 300269010645 sensory histidine kinase UhpB; Provisional; Region: PRK11644 300269010646 MASE1; Region: MASE1; pfam05231 300269010647 Histidine kinase; Region: HisKA_3; pfam07730 300269010648 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 300269010649 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 300269010650 active site 300269010651 phosphorylation site [posttranslational modification] 300269010652 intermolecular recognition site; other site 300269010653 dimerization interface [polypeptide binding]; other site 300269010654 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 300269010655 DNA binding residues [nucleotide binding] 300269010656 dimerization interface [polypeptide binding]; other site 300269010657 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 300269010658 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 300269010659 putative valine binding site [chemical binding]; other site 300269010660 dimer interface [polypeptide binding]; other site 300269010661 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 300269010662 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 300269010663 PYR/PP interface [polypeptide binding]; other site 300269010664 dimer interface [polypeptide binding]; other site 300269010665 TPP binding site [chemical binding]; other site 300269010666 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 300269010667 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 300269010668 TPP-binding site [chemical binding]; other site 300269010669 dimer interface [polypeptide binding]; other site 300269010670 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 300269010671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010672 putative substrate translocation pore; other site 300269010673 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 300269010674 Domain of unknown function (DUF202); Region: DUF202; pfam02656 300269010675 Predicted membrane protein [Function unknown]; Region: COG2149 300269010676 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 300269010677 Probable transposase; Region: OrfB_IS605; pfam01385 300269010678 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 300269010679 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 300269010680 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 300269010681 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 300269010682 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 300269010683 active site turn [active] 300269010684 phosphorylation site [posttranslational modification] 300269010685 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 300269010686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269010687 DNA-binding site [nucleotide binding]; DNA binding site 300269010688 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 300269010689 putative transporter; Validated; Region: PRK03818 300269010690 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 300269010691 TrkA-C domain; Region: TrkA_C; pfam02080 300269010692 TrkA-C domain; Region: TrkA_C; pfam02080 300269010693 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 300269010694 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 300269010695 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 300269010696 putative dimer interface [polypeptide binding]; other site 300269010697 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 300269010698 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 300269010699 putative dimer interface [polypeptide binding]; other site 300269010700 hypothetical protein; Provisional; Region: PRK11616 300269010701 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 300269010702 putative oxidoreductase; Provisional; Region: PRK11445 300269010703 hypothetical protein; Provisional; Region: PRK07236 300269010704 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010705 D-galactonate transporter; Region: 2A0114; TIGR00893 300269010706 putative substrate translocation pore; other site 300269010707 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 300269010708 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 300269010709 Transcriptional regulators [Transcription]; Region: FadR; COG2186 300269010710 FCD domain; Region: FCD; pfam07729 300269010711 hypothetical protein; Provisional; Region: PRK10215 300269010712 sugar phosphate phosphatase; Provisional; Region: PRK10513 300269010713 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 300269010714 active site 300269010715 motif I; other site 300269010716 motif II; other site 300269010717 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 300269010718 hypothetical protein; Provisional; Region: PRK11426 300269010719 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 300269010720 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 300269010721 Mg2+ binding site [ion binding]; other site 300269010722 G-X-G motif; other site 300269010723 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 300269010724 anchoring element; other site 300269010725 dimer interface [polypeptide binding]; other site 300269010726 ATP binding site [chemical binding]; other site 300269010727 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 300269010728 active site 300269010729 putative metal-binding site [ion binding]; other site 300269010730 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 300269010731 recF protein; Region: recf; TIGR00611 300269010732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269010733 Walker A/P-loop; other site 300269010734 ATP binding site [chemical binding]; other site 300269010735 Q-loop/lid; other site 300269010736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269010737 ABC transporter signature motif; other site 300269010738 Walker B; other site 300269010739 D-loop; other site 300269010740 H-loop/switch region; other site 300269010741 DNA polymerase III subunit beta; Validated; Region: PRK05643 300269010742 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 300269010743 putative DNA binding surface [nucleotide binding]; other site 300269010744 dimer interface [polypeptide binding]; other site 300269010745 beta-clamp/clamp loader binding surface; other site 300269010746 beta-clamp/translesion DNA polymerase binding surface; other site 300269010747 DnaA N-terminal domain; Region: DnaA_N; pfam11638 300269010748 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 300269010749 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 300269010750 Walker A motif; other site 300269010751 ATP binding site [chemical binding]; other site 300269010752 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 300269010753 Walker B motif; other site 300269010754 arginine finger; other site 300269010755 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 300269010756 DnaA box-binding interface [nucleotide binding]; other site 300269010757 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 300269010758 ribonuclease P; Reviewed; Region: rnpA; PRK01732 300269010759 hypothetical protein; Validated; Region: PRK00041 300269010760 membrane protein insertase; Provisional; Region: PRK01318 300269010761 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 300269010762 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 300269010763 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 300269010764 trmE is a tRNA modification GTPase; Region: trmE; cd04164 300269010765 G1 box; other site 300269010766 GTP/Mg2+ binding site [chemical binding]; other site 300269010767 Switch I region; other site 300269010768 G2 box; other site 300269010769 Switch II region; other site 300269010770 G3 box; other site 300269010771 G4 box; other site 300269010772 G5 box; other site 300269010773 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 300269010774 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010775 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 300269010776 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269010777 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269010778 intramembrane serine protease GlpG; Provisional; Region: PRK10907 300269010779 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 300269010780 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 300269010781 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 300269010782 active site residue [active] 300269010783 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 300269010784 hypothetical protein; Provisional; Region: PRK09781; cl08057 300269010785 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 300269010786 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269010787 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269010788 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269010789 glycogen phosphorylase; Provisional; Region: PRK14986 300269010790 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 300269010791 homodimer interface [polypeptide binding]; other site 300269010792 active site pocket [active] 300269010793 glycogen synthase; Provisional; Region: glgA; PRK00654 300269010794 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 300269010795 ADP-binding pocket [chemical binding]; other site 300269010796 homodimer interface [polypeptide binding]; other site 300269010797 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 300269010798 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 300269010799 ligand binding site; other site 300269010800 oligomer interface; other site 300269010801 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 300269010802 sulfate 1 binding site; other site 300269010803 glycogen debranching enzyme; Provisional; Region: PRK03705 300269010804 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 300269010805 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 300269010806 active site 300269010807 catalytic site [active] 300269010808 glycogen branching enzyme; Provisional; Region: PRK05402 300269010809 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 300269010810 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 300269010811 active site 300269010812 catalytic site [active] 300269010813 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 300269010814 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 300269010815 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 300269010816 putative antibiotic transporter; Provisional; Region: PRK10739 300269010817 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 300269010818 DNA protecting protein DprA; Region: dprA; TIGR00732 300269010819 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 300269010820 non-specific DNA interactions [nucleotide binding]; other site 300269010821 DNA binding site [nucleotide binding] 300269010822 sequence specific DNA binding site [nucleotide binding]; other site 300269010823 putative cAMP binding site [chemical binding]; other site 300269010824 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010825 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 300269010826 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 300269010827 ATP binding site [chemical binding]; other site 300269010828 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 300269010829 nucleotide binding region [chemical binding]; other site 300269010830 ATP-binding site [chemical binding]; other site 300269010831 low affinity gluconate transporter; Provisional; Region: PRK10472 300269010832 gluconate transporter; Region: gntP; TIGR00791 300269010833 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 300269010834 ATP-binding site [chemical binding]; other site 300269010835 Gluconate-6-phosphate binding site [chemical binding]; other site 300269010836 Shikimate kinase; Region: SKI; pfam01202 300269010837 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 300269010838 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269010839 DNA binding site [nucleotide binding] 300269010840 domain linker motif; other site 300269010841 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 300269010842 putative ligand binding site [chemical binding]; other site 300269010843 putative dimerization interface [polypeptide binding]; other site 300269010844 Pirin-related protein [General function prediction only]; Region: COG1741 300269010845 Pirin; Region: Pirin; pfam02678 300269010846 putative oxidoreductase; Provisional; Region: PRK10206 300269010847 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 300269010848 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 300269010849 putative acetyltransferase YhhY; Provisional; Region: PRK10140 300269010850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269010851 Coenzyme A binding pocket [chemical binding]; other site 300269010852 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269010853 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 300269010854 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 300269010855 hypothetical protein; Provisional; Region: PRK10350 300269010856 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 300269010857 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 300269010858 putative active site [active] 300269010859 catalytic site [active] 300269010860 putative metal binding site [ion binding]; other site 300269010861 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 300269010862 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 300269010863 Walker A/P-loop; other site 300269010864 ATP binding site [chemical binding]; other site 300269010865 Q-loop/lid; other site 300269010866 ABC transporter signature motif; other site 300269010867 Walker B; other site 300269010868 D-loop; other site 300269010869 H-loop/switch region; other site 300269010870 TOBE domain; Region: TOBE_2; pfam08402 300269010871 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 300269010872 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 300269010873 dimer interface [polypeptide binding]; other site 300269010874 conserved gate region; other site 300269010875 putative PBP binding loops; other site 300269010876 ABC-ATPase subunit interface; other site 300269010877 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 300269010878 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 300269010879 dimer interface [polypeptide binding]; other site 300269010880 conserved gate region; other site 300269010881 putative PBP binding loops; other site 300269010882 ABC-ATPase subunit interface; other site 300269010883 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 300269010884 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 300269010885 Walker A/P-loop; other site 300269010886 ATP binding site [chemical binding]; other site 300269010887 Q-loop/lid; other site 300269010888 ABC transporter signature motif; other site 300269010889 Walker B; other site 300269010890 D-loop; other site 300269010891 H-loop/switch region; other site 300269010892 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 300269010893 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 300269010894 Walker A/P-loop; other site 300269010895 ATP binding site [chemical binding]; other site 300269010896 Q-loop/lid; other site 300269010897 ABC transporter signature motif; other site 300269010898 Walker B; other site 300269010899 D-loop; other site 300269010900 H-loop/switch region; other site 300269010901 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 300269010902 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 300269010903 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 300269010904 TM-ABC transporter signature motif; other site 300269010905 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269010906 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 300269010907 TM-ABC transporter signature motif; other site 300269010908 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 300269010909 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 300269010910 dimerization interface [polypeptide binding]; other site 300269010911 ligand binding site [chemical binding]; other site 300269010912 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 300269010913 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 300269010914 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 300269010915 dimerization interface [polypeptide binding]; other site 300269010916 ligand binding site [chemical binding]; other site 300269010917 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 300269010918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269010919 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 300269010920 DNA binding residues [nucleotide binding] 300269010921 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 300269010922 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 300269010923 cell division protein FtsE; Provisional; Region: PRK10908 300269010924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269010925 Walker A/P-loop; other site 300269010926 ATP binding site [chemical binding]; other site 300269010927 Q-loop/lid; other site 300269010928 ABC transporter signature motif; other site 300269010929 Walker B; other site 300269010930 D-loop; other site 300269010931 H-loop/switch region; other site 300269010932 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 300269010933 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 300269010934 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 300269010935 P loop; other site 300269010936 GTP binding site [chemical binding]; other site 300269010937 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 300269010938 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 300269010939 S-adenosylmethionine binding site [chemical binding]; other site 300269010940 hypothetical protein; Provisional; Region: PRK10910 300269010941 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 300269010942 Predicted membrane protein [Function unknown]; Region: COG3714 300269010943 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 300269010944 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 300269010945 metal-binding site [ion binding] 300269010946 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 300269010947 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 300269010948 CPxP motif; other site 300269010949 hypothetical protein; Provisional; Region: PRK11212 300269010950 hypothetical protein; Provisional; Region: PRK11615 300269010951 major facilitator superfamily transporter; Provisional; Region: PRK05122 300269010952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269010953 putative substrate translocation pore; other site 300269010954 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 300269010955 Domain of unknown function DUF20; Region: UPF0118; pfam01594 300269010956 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 300269010957 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 300269010958 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 300269010959 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 300269010960 substrate binding site [chemical binding]; other site 300269010961 nickel transporter permease NikB; Provisional; Region: PRK10352 300269010962 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 300269010963 dimer interface [polypeptide binding]; other site 300269010964 conserved gate region; other site 300269010965 putative PBP binding loops; other site 300269010966 ABC-ATPase subunit interface; other site 300269010967 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 300269010968 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 300269010969 dimer interface [polypeptide binding]; other site 300269010970 conserved gate region; other site 300269010971 putative PBP binding loops; other site 300269010972 ABC-ATPase subunit interface; other site 300269010973 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 300269010974 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269010975 Walker A/P-loop; other site 300269010976 ATP binding site [chemical binding]; other site 300269010977 Q-loop/lid; other site 300269010978 ABC transporter signature motif; other site 300269010979 Walker B; other site 300269010980 D-loop; other site 300269010981 H-loop/switch region; other site 300269010982 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269010983 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 300269010984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269010985 Walker A/P-loop; other site 300269010986 ATP binding site [chemical binding]; other site 300269010987 Q-loop/lid; other site 300269010988 ABC transporter signature motif; other site 300269010989 Walker B; other site 300269010990 D-loop; other site 300269010991 H-loop/switch region; other site 300269010992 nickel responsive regulator; Provisional; Region: PRK02967 300269010993 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 300269010994 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 300269010995 HicB family; Region: HicB; pfam05534 300269010996 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 300269010997 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 300269010998 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 300269010999 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 300269011000 Walker A/P-loop; other site 300269011001 ATP binding site [chemical binding]; other site 300269011002 Q-loop/lid; other site 300269011003 ABC transporter signature motif; other site 300269011004 Walker B; other site 300269011005 D-loop; other site 300269011006 H-loop/switch region; other site 300269011007 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 300269011008 Walker A/P-loop; other site 300269011009 ATP binding site [chemical binding]; other site 300269011010 Q-loop/lid; other site 300269011011 ABC transporter signature motif; other site 300269011012 Walker B; other site 300269011013 D-loop; other site 300269011014 H-loop/switch region; other site 300269011015 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 300269011016 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 300269011017 HlyD family secretion protein; Region: HlyD; pfam00529 300269011018 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269011019 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269011020 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 300269011021 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 300269011022 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 300269011023 Predicted flavoproteins [General function prediction only]; Region: COG2081 300269011024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269011025 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 300269011026 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 300269011027 universal stress protein UspB; Provisional; Region: PRK04960 300269011028 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 300269011029 Ligand Binding Site [chemical binding]; other site 300269011030 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 300269011031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269011032 putative substrate translocation pore; other site 300269011033 POT family; Region: PTR2; pfam00854 300269011034 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 300269011035 S-adenosylmethionine binding site [chemical binding]; other site 300269011036 oligopeptidase A; Provisional; Region: PRK10911 300269011037 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 300269011038 active site 300269011039 Zn binding site [ion binding]; other site 300269011040 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 300269011041 glutathione reductase; Validated; Region: PRK06116 300269011042 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 300269011043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269011044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 300269011045 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 300269011046 dimerization interface [polypeptide binding]; other site 300269011047 putative DNA binding site [nucleotide binding]; other site 300269011048 putative Zn2+ binding site [ion binding]; other site 300269011049 arsenical pump membrane protein; Provisional; Region: PRK15445 300269011050 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 300269011051 transmembrane helices; other site 300269011052 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 300269011053 ArsC family; Region: ArsC; pfam03960 300269011054 catalytic residues [active] 300269011055 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 300269011056 dimerization interface [polypeptide binding]; other site 300269011057 putative DNA binding site [nucleotide binding]; other site 300269011058 putative Zn2+ binding site [ion binding]; other site 300269011059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269011060 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269011061 Integrase core domain; Region: rve; pfam00665 300269011062 Integrase core domain; Region: rve_3; cl15866 300269011063 transposase/IS protein; Provisional; Region: PRK09183 300269011064 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 300269011065 Walker A motif; other site 300269011066 ATP binding site [chemical binding]; other site 300269011067 Walker B motif; other site 300269011068 Integrase core domain; Region: rve; pfam00665 300269011069 Integrase core domain; Region: rve_3; pfam13683 300269011070 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 300269011071 TPR motif; other site 300269011072 binding surface 300269011073 integrase; Provisional; Region: PRK09692 300269011074 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 300269011075 active site 300269011076 Int/Topo IB signature motif; other site 300269011077 putative symporter YagG; Provisional; Region: PRK09669 300269011078 putative transporter; Provisional; Region: PRK11462 300269011079 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011080 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269011081 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011082 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011083 AsmA family; Region: AsmA; pfam05170 300269011084 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 300269011085 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 300269011086 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 300269011087 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 300269011088 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 300269011089 generic binding surface II; other site 300269011090 ssDNA binding site; other site 300269011091 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 300269011092 ATP binding site [chemical binding]; other site 300269011093 putative Mg++ binding site [ion binding]; other site 300269011094 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 300269011095 nucleotide binding region [chemical binding]; other site 300269011096 ATP-binding site [chemical binding]; other site 300269011097 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 300269011098 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 300269011099 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 300269011100 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 300269011101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 300269011102 Zn2+ binding site [ion binding]; other site 300269011103 Mg2+ binding site [ion binding]; other site 300269011104 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 300269011105 synthetase active site [active] 300269011106 NTP binding site [chemical binding]; other site 300269011107 metal binding site [ion binding]; metal-binding site 300269011108 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 300269011109 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 300269011110 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 300269011111 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 300269011112 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 300269011113 catalytic site [active] 300269011114 G-X2-G-X-G-K; other site 300269011115 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 300269011116 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 300269011117 nucleotide binding pocket [chemical binding]; other site 300269011118 K-X-D-G motif; other site 300269011119 catalytic site [active] 300269011120 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 300269011121 Predicted membrane protein [Function unknown]; Region: COG2860 300269011122 UPF0126 domain; Region: UPF0126; pfam03458 300269011123 UPF0126 domain; Region: UPF0126; pfam03458 300269011124 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 300269011125 BRO family, N-terminal domain; Region: Bro-N; pfam02498 300269011126 hypothetical protein; Provisional; Region: PRK11820 300269011127 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 300269011128 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 300269011129 ribonuclease PH; Reviewed; Region: rph; PRK00173 300269011130 Ribonuclease PH; Region: RNase_PH_bact; cd11362 300269011131 hexamer interface [polypeptide binding]; other site 300269011132 active site 300269011133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 300269011134 active site 300269011135 division inhibitor protein; Provisional; Region: slmA; PRK09480 300269011136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269011137 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 300269011138 trimer interface [polypeptide binding]; other site 300269011139 active site 300269011140 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 300269011141 Flavoprotein; Region: Flavoprotein; pfam02441 300269011142 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 300269011143 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011144 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 300269011145 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 300269011146 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 300269011147 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 300269011148 DNA binding site [nucleotide binding] 300269011149 catalytic residue [active] 300269011150 H2TH interface [polypeptide binding]; other site 300269011151 putative catalytic residues [active] 300269011152 turnover-facilitating residue; other site 300269011153 intercalation triad [nucleotide binding]; other site 300269011154 8OG recognition residue [nucleotide binding]; other site 300269011155 putative reading head residues; other site 300269011156 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 300269011157 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 300269011158 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 300269011159 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 300269011160 active site 300269011161 (T/H)XGH motif; other site 300269011162 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 300269011163 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 300269011164 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 300269011165 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 300269011166 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 300269011167 putative active site [active] 300269011168 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 300269011169 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 300269011170 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 300269011171 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 300269011172 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 300269011173 Ligand binding site; other site 300269011174 metal-binding site 300269011175 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 300269011176 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 300269011177 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 300269011178 Ligand binding site; other site 300269011179 metal-binding site 300269011180 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 300269011181 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; pfam06176 300269011182 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 300269011183 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 300269011184 Ligand binding site; other site 300269011185 metal-binding site 300269011186 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 300269011187 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 300269011188 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 300269011189 active site 300269011190 O-Antigen ligase; Region: Wzy_C; pfam04932 300269011191 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 300269011192 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 300269011193 putative active site [active] 300269011194 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 300269011195 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 300269011196 putative active site [active] 300269011197 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 300269011198 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 300269011199 NADP binding site [chemical binding]; other site 300269011200 homopentamer interface [polypeptide binding]; other site 300269011201 substrate binding site [chemical binding]; other site 300269011202 active site 300269011203 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 300269011204 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 300269011205 substrate-cofactor binding pocket; other site 300269011206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269011207 catalytic residue [active] 300269011208 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 300269011209 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 300269011210 NAD(P) binding site [chemical binding]; other site 300269011211 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011212 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 300269011213 putative active site [active] 300269011214 NodB motif; other site 300269011215 AmiB activator; Provisional; Region: PRK11637 300269011216 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 300269011217 Peptidase family M23; Region: Peptidase_M23; pfam01551 300269011218 phosphoglyceromutase; Provisional; Region: PRK05434 300269011219 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 300269011220 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 300269011221 active site residue [active] 300269011222 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 300269011223 GSH binding site [chemical binding]; other site 300269011224 catalytic residues [active] 300269011225 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 300269011226 SecA binding site; other site 300269011227 Preprotein binding site; other site 300269011228 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 300269011229 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 300269011230 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 300269011231 serine acetyltransferase; Provisional; Region: cysE; PRK11132 300269011232 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 300269011233 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 300269011234 trimer interface [polypeptide binding]; other site 300269011235 active site 300269011236 substrate binding site [chemical binding]; other site 300269011237 CoA binding site [chemical binding]; other site 300269011238 putative rRNA methylase; Provisional; Region: PRK10358 300269011239 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 300269011240 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 300269011241 phosphate binding site [ion binding]; other site 300269011242 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 300269011243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269011244 DNA-binding site [nucleotide binding]; DNA binding site 300269011245 FCD domain; Region: FCD; pfam07729 300269011246 L-lactate permease; Provisional; Region: PRK10420 300269011247 glycolate transporter; Provisional; Region: PRK09695 300269011248 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 300269011249 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 300269011250 trimer interface [polypeptide binding]; other site 300269011251 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 300269011252 trimer interface [polypeptide binding]; other site 300269011253 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 300269011254 Haemagglutinin; Region: HIM; pfam05662 300269011255 Haemagglutinin; Region: HIM; pfam05662 300269011256 YadA-like C-terminal region; Region: YadA; pfam03895 300269011257 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 300269011258 hypothetical protein; Provisional; Region: PRK11020 300269011259 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 300269011260 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 300269011261 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 300269011262 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 300269011263 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 300269011264 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 300269011265 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 300269011266 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 300269011267 active site 300269011268 P-loop; other site 300269011269 phosphorylation site [posttranslational modification] 300269011270 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 300269011271 active site 300269011272 phosphorylation site [posttranslational modification] 300269011273 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 300269011274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269011275 Integrase core domain; Region: rve; pfam00665 300269011276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269011277 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 300269011278 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269011279 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269011280 RHS Repeat; Region: RHS_repeat; pfam05593 300269011281 RHS Repeat; Region: RHS_repeat; pfam05593 300269011282 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269011283 RHS Repeat; Region: RHS_repeat; pfam05593 300269011284 RHS Repeat; Region: RHS_repeat; pfam05593 300269011285 RHS protein; Region: RHS; pfam03527 300269011286 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269011287 PAAR motif; Region: PAAR_motif; cl15808 300269011288 putative glutathione S-transferase; Provisional; Region: PRK10357 300269011289 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 300269011290 putative C-terminal domain interface [polypeptide binding]; other site 300269011291 putative GSH binding site (G-site) [chemical binding]; other site 300269011292 putative dimer interface [polypeptide binding]; other site 300269011293 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 300269011294 dimer interface [polypeptide binding]; other site 300269011295 N-terminal domain interface [polypeptide binding]; other site 300269011296 putative substrate binding pocket (H-site) [chemical binding]; other site 300269011297 selenocysteine synthase; Provisional; Region: PRK04311 300269011298 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 300269011299 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 300269011300 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 300269011301 catalytic residue [active] 300269011302 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 300269011303 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 300269011304 G1 box; other site 300269011305 putative GEF interaction site [polypeptide binding]; other site 300269011306 GTP/Mg2+ binding site [chemical binding]; other site 300269011307 Switch I region; other site 300269011308 G2 box; other site 300269011309 G3 box; other site 300269011310 Switch II region; other site 300269011311 G4 box; other site 300269011312 G5 box; other site 300269011313 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 300269011314 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 300269011315 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 300269011316 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 300269011317 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011318 xylose isomerase; Provisional; Region: PRK05474 300269011319 xylose isomerase; Region: xylose_isom_A; TIGR02630 300269011320 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 300269011321 N- and C-terminal domain interface [polypeptide binding]; other site 300269011322 L-ribulokinase; Region: L-ribulokinase; TIGR01234 300269011323 active site 300269011324 MgATP binding site [chemical binding]; other site 300269011325 catalytic site [active] 300269011326 metal binding site [ion binding]; metal-binding site 300269011327 xylulose binding site [chemical binding]; other site 300269011328 homodimer interface [polypeptide binding]; other site 300269011329 hypothetical protein; Provisional; Region: PRK11403 300269011330 yiaA/B two helix domain; Region: YiaAB; pfam05360 300269011331 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269011332 HTH-like domain; Region: HTH_21; pfam13276 300269011333 Integrase core domain; Region: rve; pfam00665 300269011334 Integrase core domain; Region: rve_3; pfam13683 300269011335 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269011336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269011337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269011338 Transposase; Region: HTH_Tnp_1; pfam01527 300269011339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269011340 Integrase core domain; Region: rve; pfam00665 300269011341 Integrase core domain; Region: rve_3; pfam13683 300269011342 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 300269011343 Acyltransferase family; Region: Acyl_transf_3; pfam01757 300269011344 YsaB-like lipoprotein; Region: YsaB; pfam13983 300269011345 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 300269011346 dimer interface [polypeptide binding]; other site 300269011347 motif 1; other site 300269011348 active site 300269011349 motif 2; other site 300269011350 motif 3; other site 300269011351 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 300269011352 DALR anticodon binding domain; Region: DALR_1; pfam05746 300269011353 anticodon binding site; other site 300269011354 tRNA binding surface [nucleotide binding]; other site 300269011355 small toxic polypeptide; Provisional; Region: PRK09759 300269011356 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 300269011357 DNA-binding site [nucleotide binding]; DNA binding site 300269011358 RNA-binding motif; other site 300269011359 Predicted transcriptional regulator [Transcription]; Region: COG2944 300269011360 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 300269011361 non-specific DNA binding site [nucleotide binding]; other site 300269011362 salt bridge; other site 300269011363 sequence-specific DNA binding site [nucleotide binding]; other site 300269011364 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 300269011365 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 300269011366 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 300269011367 dimerization interface [polypeptide binding]; other site 300269011368 ligand binding site [chemical binding]; other site 300269011369 NADP binding site [chemical binding]; other site 300269011370 catalytic site [active] 300269011371 putative outer membrane lipoprotein; Provisional; Region: PRK10510 300269011372 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 300269011373 ligand binding site [chemical binding]; other site 300269011374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269011375 Integrase core domain; Region: rve; pfam00665 300269011376 Integrase core domain; Region: rve_3; pfam13683 300269011377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269011378 Transposase; Region: HTH_Tnp_1; pfam01527 300269011379 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 300269011380 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 300269011381 molybdopterin cofactor binding site [chemical binding]; other site 300269011382 substrate binding site [chemical binding]; other site 300269011383 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 300269011384 molybdopterin cofactor binding site; other site 300269011385 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 300269011386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269011387 Coenzyme A binding pocket [chemical binding]; other site 300269011388 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 300269011389 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 300269011390 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 300269011391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269011392 putative substrate translocation pore; other site 300269011393 phosphoethanolamine transferase; Provisional; Region: PRK11560 300269011394 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 300269011395 Sulfatase; Region: Sulfatase; pfam00884 300269011396 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 300269011397 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 300269011398 peptide binding site [polypeptide binding]; other site 300269011399 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 300269011400 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 300269011401 dimer interface [polypeptide binding]; other site 300269011402 conserved gate region; other site 300269011403 putative PBP binding loops; other site 300269011404 ABC-ATPase subunit interface; other site 300269011405 dipeptide transporter; Provisional; Region: PRK10913 300269011406 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 300269011407 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 300269011408 dimer interface [polypeptide binding]; other site 300269011409 conserved gate region; other site 300269011410 putative PBP binding loops; other site 300269011411 ABC-ATPase subunit interface; other site 300269011412 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 300269011413 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269011414 Walker A/P-loop; other site 300269011415 ATP binding site [chemical binding]; other site 300269011416 Q-loop/lid; other site 300269011417 ABC transporter signature motif; other site 300269011418 Walker B; other site 300269011419 D-loop; other site 300269011420 H-loop/switch region; other site 300269011421 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 300269011422 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 300269011423 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269011424 Walker A/P-loop; other site 300269011425 ATP binding site [chemical binding]; other site 300269011426 Q-loop/lid; other site 300269011427 ABC transporter signature motif; other site 300269011428 Walker B; other site 300269011429 D-loop; other site 300269011430 H-loop/switch region; other site 300269011431 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 300269011432 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 300269011433 serine transporter; Region: stp; TIGR00814 300269011434 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 300269011435 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 300269011436 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 300269011437 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 300269011438 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011439 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 300269011440 cell division protein; Provisional; Region: PRK10037 300269011441 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 300269011442 P-loop; other site 300269011443 Magnesium ion binding site [ion binding]; other site 300269011444 cellulose synthase regulator protein; Provisional; Region: PRK11114 300269011445 endo-1,4-D-glucanase; Provisional; Region: PRK11097 300269011446 putative diguanylate cyclase; Provisional; Region: PRK13561 300269011447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 300269011448 metal binding site [ion binding]; metal-binding site 300269011449 active site 300269011450 I-site; other site 300269011451 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 300269011452 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 300269011453 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 300269011454 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 300269011455 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 300269011456 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269011457 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 300269011458 substrate binding site [chemical binding]; other site 300269011459 ATP binding site [chemical binding]; other site 300269011460 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 300269011461 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 300269011462 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 300269011463 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269011464 metabolite-proton symporter; Region: 2A0106; TIGR00883 300269011465 putative substrate translocation pore; other site 300269011466 inner membrane protein YhjD; Region: TIGR00766 300269011467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 300269011468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269011469 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 300269011470 putative effector binding pocket; other site 300269011471 putative dimerization interface [polypeptide binding]; other site 300269011472 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 300269011473 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 300269011474 DNA binding residues [nucleotide binding] 300269011475 dimerization interface [polypeptide binding]; other site 300269011476 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269011477 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011478 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011479 regulatory ATPase RavA; Provisional; Region: PRK13531 300269011480 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 300269011481 Walker A motif; other site 300269011482 ATP binding site [chemical binding]; other site 300269011483 Walker B motif; other site 300269011484 arginine finger; other site 300269011485 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 300269011486 hypothetical protein; Provisional; Region: yieM; PRK10997 300269011487 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 300269011488 metal ion-dependent adhesion site (MIDAS); other site 300269011489 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 300269011490 dimer interface [polypeptide binding]; other site 300269011491 active site 300269011492 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 300269011493 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 300269011494 putative DNA binding site [nucleotide binding]; other site 300269011495 putative Zn2+ binding site [ion binding]; other site 300269011496 AsnC family; Region: AsnC_trans_reg; pfam01037 300269011497 FMN-binding protein MioC; Provisional; Region: PRK09004 300269011498 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 300269011499 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 300269011500 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 300269011501 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 300269011502 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 300269011503 S-adenosylmethionine binding site [chemical binding]; other site 300269011504 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 300269011505 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 300269011506 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 300269011507 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 300269011508 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 300269011509 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 300269011510 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 300269011511 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 300269011512 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 300269011513 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 300269011514 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 300269011515 beta subunit interaction interface [polypeptide binding]; other site 300269011516 Walker A motif; other site 300269011517 ATP binding site [chemical binding]; other site 300269011518 Walker B motif; other site 300269011519 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 300269011520 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 300269011521 core domain interface [polypeptide binding]; other site 300269011522 delta subunit interface [polypeptide binding]; other site 300269011523 epsilon subunit interface [polypeptide binding]; other site 300269011524 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 300269011525 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 300269011526 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 300269011527 alpha subunit interaction interface [polypeptide binding]; other site 300269011528 Walker A motif; other site 300269011529 ATP binding site [chemical binding]; other site 300269011530 Walker B motif; other site 300269011531 inhibitor binding site; inhibition site 300269011532 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 300269011533 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 300269011534 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 300269011535 gamma subunit interface [polypeptide binding]; other site 300269011536 epsilon subunit interface [polypeptide binding]; other site 300269011537 LBP interface [polypeptide binding]; other site 300269011538 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 300269011539 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 300269011540 Substrate binding site; other site 300269011541 Mg++ binding site; other site 300269011542 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 300269011543 active site 300269011544 substrate binding site [chemical binding]; other site 300269011545 CoA binding site [chemical binding]; other site 300269011546 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 300269011547 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 300269011548 glutaminase active site [active] 300269011549 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 300269011550 dimer interface [polypeptide binding]; other site 300269011551 active site 300269011552 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 300269011553 dimer interface [polypeptide binding]; other site 300269011554 active site 300269011555 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 300269011556 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 300269011557 Integrase core domain; Region: rve; pfam00665 300269011558 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 300269011559 ATP-binding site [chemical binding]; other site 300269011560 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 300269011561 AAA domain; Region: AAA_22; pfam13401 300269011562 Walker A motif; other site 300269011563 ATP binding site [chemical binding]; other site 300269011564 Walker B motif; other site 300269011565 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 300269011566 aminoglycoside resistance protein; Provisional; Region: PRK13746 300269011567 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 300269011568 active site 300269011569 NTP binding site [chemical binding]; other site 300269011570 metal binding triad [ion binding]; metal-binding site 300269011571 antibiotic binding site [chemical binding]; other site 300269011572 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 300269011573 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269011574 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011575 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011576 fimbrial protein; Provisional; Region: lpfA; PRK15289 300269011577 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 300269011578 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011579 putative transposase OrfB; Reviewed; Region: PHA02517 300269011580 HTH-like domain; Region: HTH_21; pfam13276 300269011581 Integrase core domain; Region: rve; pfam00665 300269011582 Integrase core domain; Region: rve_3; pfam13683 300269011583 Fimbrial protein; Region: Fimbrial; cl01416 300269011584 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 300269011585 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 300269011586 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 300269011587 dimer interface [polypeptide binding]; other site 300269011588 conserved gate region; other site 300269011589 putative PBP binding loops; other site 300269011590 ABC-ATPase subunit interface; other site 300269011591 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 300269011592 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 300269011593 dimer interface [polypeptide binding]; other site 300269011594 conserved gate region; other site 300269011595 putative PBP binding loops; other site 300269011596 ABC-ATPase subunit interface; other site 300269011597 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 300269011598 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 300269011599 Walker A/P-loop; other site 300269011600 ATP binding site [chemical binding]; other site 300269011601 Q-loop/lid; other site 300269011602 ABC transporter signature motif; other site 300269011603 Walker B; other site 300269011604 D-loop; other site 300269011605 H-loop/switch region; other site 300269011606 transcriptional regulator PhoU; Provisional; Region: PRK11115 300269011607 PhoU domain; Region: PhoU; pfam01895 300269011608 PhoU domain; Region: PhoU; pfam01895 300269011609 transcriptional antiterminator BglG; Provisional; Region: PRK09772 300269011610 CAT RNA binding domain; Region: CAT_RBD; pfam03123 300269011611 PRD domain; Region: PRD; pfam00874 300269011612 PRD domain; Region: PRD; pfam00874 300269011613 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 300269011614 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 300269011615 active site turn [active] 300269011616 phosphorylation site [posttranslational modification] 300269011617 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 300269011618 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 300269011619 HPr interaction site; other site 300269011620 glycerol kinase (GK) interaction site [polypeptide binding]; other site 300269011621 active site 300269011622 phosphorylation site [posttranslational modification] 300269011623 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269011624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269011625 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269011626 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 300269011627 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 300269011628 trimer interface; other site 300269011629 sugar binding site [chemical binding]; other site 300269011630 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269011631 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011632 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011633 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 300269011634 potassium uptake protein; Region: kup; TIGR00794 300269011635 D-ribose pyranase; Provisional; Region: PRK11797 300269011636 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 300269011637 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 300269011638 Walker A/P-loop; other site 300269011639 ATP binding site [chemical binding]; other site 300269011640 Q-loop/lid; other site 300269011641 ABC transporter signature motif; other site 300269011642 Walker B; other site 300269011643 D-loop; other site 300269011644 H-loop/switch region; other site 300269011645 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 300269011646 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269011647 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 300269011648 TM-ABC transporter signature motif; other site 300269011649 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 300269011650 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269011651 substrate binding site [chemical binding]; other site 300269011652 dimer interface [polypeptide binding]; other site 300269011653 ATP binding site [chemical binding]; other site 300269011654 transcriptional repressor RbsR; Provisional; Region: PRK10423 300269011655 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269011656 DNA binding site [nucleotide binding] 300269011657 domain linker motif; other site 300269011658 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 300269011659 dimerization interface [polypeptide binding]; other site 300269011660 ligand binding site [chemical binding]; other site 300269011661 putative transporter; Provisional; Region: PRK10504 300269011662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269011663 putative substrate translocation pore; other site 300269011664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269011665 Transcriptional regulators [Transcription]; Region: FadR; COG2186 300269011666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269011667 DNA-binding site [nucleotide binding]; DNA binding site 300269011668 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269011669 transcriptional regulator HdfR; Provisional; Region: PRK03601 300269011670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269011671 LysR substrate binding domain; Region: LysR_substrate; pfam03466 300269011672 dimerization interface [polypeptide binding]; other site 300269011673 hypothetical protein; Provisional; Region: PRK11027 300269011674 transposase/IS protein; Provisional; Region: PRK09183 300269011675 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 300269011676 Walker A motif; other site 300269011677 ATP binding site [chemical binding]; other site 300269011678 Walker B motif; other site 300269011679 arginine finger; other site 300269011680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269011681 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269011682 Integrase core domain; Region: rve; pfam00665 300269011683 Integrase core domain; Region: rve_3; cl15866 300269011684 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011685 ilvG operon leader peptide; Provisional; Region: PRK10424 300269011686 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 300269011687 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 300269011688 PYR/PP interface [polypeptide binding]; other site 300269011689 dimer interface [polypeptide binding]; other site 300269011690 TPP binding site [chemical binding]; other site 300269011691 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 300269011692 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 300269011693 TPP-binding site [chemical binding]; other site 300269011694 dimer interface [polypeptide binding]; other site 300269011695 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 300269011696 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 300269011697 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 300269011698 homodimer interface [polypeptide binding]; other site 300269011699 substrate-cofactor binding pocket; other site 300269011700 catalytic residue [active] 300269011701 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 300269011702 threonine dehydratase; Reviewed; Region: PRK09224 300269011703 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 300269011704 tetramer interface [polypeptide binding]; other site 300269011705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269011706 catalytic residue [active] 300269011707 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 300269011708 putative Ile/Val binding site [chemical binding]; other site 300269011709 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 300269011710 putative Ile/Val binding site [chemical binding]; other site 300269011711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269011712 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 300269011713 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 300269011714 putative dimerization interface [polypeptide binding]; other site 300269011715 ketol-acid reductoisomerase; Validated; Region: PRK05225 300269011716 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 300269011717 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 300269011718 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 300269011719 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 300269011720 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 300269011721 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269011722 HTH-like domain; Region: HTH_21; pfam13276 300269011723 Integrase core domain; Region: rve; pfam00665 300269011724 Integrase core domain; Region: rve_3; pfam13683 300269011725 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269011726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269011727 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 300269011728 Part of AAA domain; Region: AAA_19; pfam13245 300269011729 Family description; Region: UvrD_C_2; pfam13538 300269011730 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 300269011731 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 300269011732 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 300269011733 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 300269011734 ATP binding site [chemical binding]; other site 300269011735 Mg++ binding site [ion binding]; other site 300269011736 motif III; other site 300269011737 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 300269011738 nucleotide binding region [chemical binding]; other site 300269011739 ATP-binding site [chemical binding]; other site 300269011740 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 300269011741 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 300269011742 catalytic residues [active] 300269011743 putative rho operon leader peptide; Provisional; Region: PRK09979 300269011744 transcription termination factor Rho; Provisional; Region: rho; PRK09376 300269011745 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 300269011746 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 300269011747 RNA binding site [nucleotide binding]; other site 300269011748 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 300269011749 multimer interface [polypeptide binding]; other site 300269011750 Walker A motif; other site 300269011751 ATP binding site [chemical binding]; other site 300269011752 Walker B motif; other site 300269011753 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 300269011754 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 300269011755 Mg++ binding site [ion binding]; other site 300269011756 putative catalytic motif [active] 300269011757 substrate binding site [chemical binding]; other site 300269011758 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 300269011759 Chain length determinant protein; Region: Wzz; pfam02706 300269011760 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 300269011761 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 300269011762 active site 300269011763 homodimer interface [polypeptide binding]; other site 300269011764 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 300269011765 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 300269011766 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 300269011767 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 300269011768 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 300269011769 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 300269011770 NAD binding site [chemical binding]; other site 300269011771 substrate binding site [chemical binding]; other site 300269011772 homodimer interface [polypeptide binding]; other site 300269011773 active site 300269011774 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 300269011775 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 300269011776 substrate binding site; other site 300269011777 tetramer interface; other site 300269011778 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 300269011779 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 300269011780 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 300269011781 inhibitor-cofactor binding pocket; inhibition site 300269011782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269011783 catalytic residue [active] 300269011784 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 300269011785 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 300269011786 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 300269011787 putative common antigen polymerase; Provisional; Region: PRK02975 300269011788 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 300269011789 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 300269011790 putative transport protein YifK; Provisional; Region: PRK10746 300269011791 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 300269011792 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 300269011793 FeS/SAM binding site; other site 300269011794 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 300269011795 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 300269011796 HemY protein N-terminus; Region: HemY_N; pfam07219 300269011797 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 300269011798 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 300269011799 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 300269011800 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 300269011801 active site 300269011802 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 300269011803 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 300269011804 domain interfaces; other site 300269011805 active site 300269011806 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 300269011807 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 300269011808 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 300269011809 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 300269011810 putative iron binding site [ion binding]; other site 300269011811 hypothetical protein; Provisional; Region: PRK09807 300269011812 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 300269011813 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 300269011814 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 300269011815 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 300269011816 hypothetical protein; Provisional; Region: PRK10963 300269011817 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 300269011818 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 300269011819 active site 300269011820 DNA binding site [nucleotide binding] 300269011821 Int/Topo IB signature motif; other site 300269011822 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 300269011823 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 300269011824 motif II; other site 300269011825 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 300269011826 Part of AAA domain; Region: AAA_19; pfam13245 300269011827 Family description; Region: UvrD_C_2; pfam13538 300269011828 Uncharacterized conserved protein [Function unknown]; Region: COG1912 300269011829 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269011830 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011831 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011832 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269011833 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269011834 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 300269011835 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 300269011836 Cl binding site [ion binding]; other site 300269011837 oligomer interface [polypeptide binding]; other site 300269011838 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011839 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 300269011840 EamA-like transporter family; Region: EamA; cl17759 300269011841 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 300269011842 CoenzymeA binding site [chemical binding]; other site 300269011843 subunit interaction site [polypeptide binding]; other site 300269011844 PHB binding site; other site 300269011845 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 300269011846 dimerization interface [polypeptide binding]; other site 300269011847 substrate binding site [chemical binding]; other site 300269011848 active site 300269011849 calcium binding site [ion binding]; other site 300269011850 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 300269011851 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 300269011852 ATP binding site [chemical binding]; other site 300269011853 putative Mg++ binding site [ion binding]; other site 300269011854 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 300269011855 nucleotide binding region [chemical binding]; other site 300269011856 ATP-binding site [chemical binding]; other site 300269011857 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 300269011858 Helicase and RNase D C-terminal; Region: HRDC; smart00341 300269011859 LysE type translocator; Region: LysE; cl00565 300269011860 LysE type translocator; Region: LysE; cl00565 300269011861 lysophospholipase L2; Provisional; Region: PRK10749 300269011862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 300269011863 putative hydrolase; Provisional; Region: PRK10976 300269011864 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 300269011865 active site 300269011866 motif I; other site 300269011867 motif II; other site 300269011868 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 300269011869 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 300269011870 EamA-like transporter family; Region: EamA; pfam00892 300269011871 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 300269011872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269011873 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 300269011874 putative dimerization interface [polypeptide binding]; other site 300269011875 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 300269011876 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 300269011877 THF binding site; other site 300269011878 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 300269011879 substrate binding site [chemical binding]; other site 300269011880 THF binding site; other site 300269011881 zinc-binding site [ion binding]; other site 300269011882 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269011883 HTH-like domain; Region: HTH_21; pfam13276 300269011884 Integrase core domain; Region: rve; pfam00665 300269011885 Integrase core domain; Region: rve_3; pfam13683 300269011886 Dienelactone hydrolase family; Region: DLH; pfam01738 300269011887 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 300269011888 uridine phosphorylase; Provisional; Region: PRK11178 300269011889 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 300269011890 DNA recombination protein RmuC; Provisional; Region: PRK10361 300269011891 RmuC family; Region: RmuC; pfam02646 300269011892 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 300269011893 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 300269011894 S-adenosylmethionine binding site [chemical binding]; other site 300269011895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 300269011896 SCP-2 sterol transfer family; Region: SCP2; pfam02036 300269011897 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 300269011898 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 300269011899 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 300269011900 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 300269011901 sec-independent translocase; Provisional; Region: PRK01770 300269011902 sec-independent translocase; Provisional; Region: tatB; PRK00404 300269011903 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 300269011904 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 300269011905 active site 300269011906 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 300269011907 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 300269011908 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 300269011909 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 300269011910 FMN reductase; Validated; Region: fre; PRK08051 300269011911 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 300269011912 FAD binding pocket [chemical binding]; other site 300269011913 FAD binding motif [chemical binding]; other site 300269011914 phosphate binding motif [ion binding]; other site 300269011915 beta-alpha-beta structure motif; other site 300269011916 NAD binding pocket [chemical binding]; other site 300269011917 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 300269011918 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 300269011919 dimer interface [polypeptide binding]; other site 300269011920 active site 300269011921 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 300269011922 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 300269011923 substrate binding site [chemical binding]; other site 300269011924 oxyanion hole (OAH) forming residues; other site 300269011925 trimer interface [polypeptide binding]; other site 300269011926 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 300269011927 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 300269011928 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 300269011929 proline dipeptidase; Provisional; Region: PRK13607 300269011930 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 300269011931 active site 300269011932 hypothetical protein; Provisional; Region: PRK11568 300269011933 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 300269011934 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 300269011935 potassium transporter; Provisional; Region: PRK10750 300269011936 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 300269011937 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 300269011938 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 300269011939 Walker A motif; other site 300269011940 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 300269011941 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 300269011942 GTP binding site; other site 300269011943 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 300269011944 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 300269011945 serine/threonine protein kinase; Provisional; Region: PRK11768 300269011946 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 300269011947 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 300269011948 catalytic residues [active] 300269011949 hinge region; other site 300269011950 alpha helical domain; other site 300269011951 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269011952 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 300269011953 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 300269011954 putative acyl-acceptor binding pocket; other site 300269011955 DNA polymerase I; Provisional; Region: PRK05755 300269011956 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 300269011957 active site 300269011958 metal binding site 1 [ion binding]; metal-binding site 300269011959 putative 5' ssDNA interaction site; other site 300269011960 metal binding site 3; metal-binding site 300269011961 metal binding site 2 [ion binding]; metal-binding site 300269011962 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 300269011963 putative DNA binding site [nucleotide binding]; other site 300269011964 putative metal binding site [ion binding]; other site 300269011965 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 300269011966 active site 300269011967 catalytic site [active] 300269011968 substrate binding site [chemical binding]; other site 300269011969 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 300269011970 active site 300269011971 DNA binding site [nucleotide binding] 300269011972 catalytic site [active] 300269011973 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 300269011974 G1 box; other site 300269011975 GTP/Mg2+ binding site [chemical binding]; other site 300269011976 Switch I region; other site 300269011977 G2 box; other site 300269011978 G3 box; other site 300269011979 Switch II region; other site 300269011980 G4 box; other site 300269011981 G5 box; other site 300269011982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 300269011983 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 300269011984 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 300269011985 FeS/SAM binding site; other site 300269011986 HemN C-terminal domain; Region: HemN_C; pfam06969 300269011987 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 300269011988 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 300269011989 active site 300269011990 phosphorylation site [posttranslational modification] 300269011991 intermolecular recognition site; other site 300269011992 dimerization interface [polypeptide binding]; other site 300269011993 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 300269011994 Walker A motif; other site 300269011995 ATP binding site [chemical binding]; other site 300269011996 Walker B motif; other site 300269011997 arginine finger; other site 300269011998 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 300269011999 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 300269012000 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 300269012001 putative active site [active] 300269012002 heme pocket [chemical binding]; other site 300269012003 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 300269012004 dimer interface [polypeptide binding]; other site 300269012005 phosphorylation site [posttranslational modification] 300269012006 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 300269012007 ATP binding site [chemical binding]; other site 300269012008 Mg2+ binding site [ion binding]; other site 300269012009 G-X-G motif; other site 300269012010 glutamine synthetase; Provisional; Region: glnA; PRK09469 300269012011 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 300269012012 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 300269012013 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 300269012014 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 300269012015 G2 box; other site 300269012016 Switch I region; other site 300269012017 G3 box; other site 300269012018 Switch II region; other site 300269012019 GTP/Mg2+ binding site [chemical binding]; other site 300269012020 G4 box; other site 300269012021 G5 box; other site 300269012022 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 300269012023 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 300269012024 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269012025 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269012026 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269012027 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 300269012028 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269012029 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269012030 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269012031 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269012032 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269012033 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 300269012034 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 300269012035 substrate binding site [chemical binding]; other site 300269012036 ATP binding site [chemical binding]; other site 300269012037 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 300269012038 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 300269012039 Class I aldolases; Region: Aldolase_Class_I; cl17187 300269012040 catalytic residue [active] 300269012041 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 300269012042 putative oxidoreductase; Provisional; Region: PRK10083 300269012043 NAD(P) binding site [chemical binding]; other site 300269012044 benzoate transport; Region: 2A0115; TIGR00895 300269012045 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012047 shikimate transporter; Provisional; Region: PRK09952 300269012048 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012049 putative substrate translocation pore; other site 300269012050 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 300269012051 active site 300269012052 catalytic residues [active] 300269012053 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 300269012054 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 300269012055 motif II; other site 300269012056 hypothetical protein; Reviewed; Region: PRK01637 300269012057 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 300269012058 putative active site [active] 300269012059 dimerization interface [polypeptide binding]; other site 300269012060 putative tRNAtyr binding site [nucleotide binding]; other site 300269012061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269012062 Coenzyme A binding pocket [chemical binding]; other site 300269012063 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 300269012064 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012065 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 300269012066 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 300269012067 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 300269012068 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 300269012069 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 300269012070 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 300269012071 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 300269012072 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 300269012073 [4Fe-4S] binding site [ion binding]; other site 300269012074 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 300269012075 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 300269012076 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 300269012077 molybdopterin cofactor binding site; other site 300269012078 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 300269012079 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012080 putative frv operon regulatory protein; Provisional; Region: PRK09863 300269012081 HTH domain; Region: HTH_11; pfam08279 300269012082 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 300269012083 active site 300269012084 phosphorylation site [posttranslational modification] 300269012085 putative peptidase; Provisional; Region: PRK09864 300269012086 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 300269012087 oligomer interface [polypeptide binding]; other site 300269012088 active site 300269012089 metal binding site [ion binding]; metal-binding site 300269012090 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 300269012091 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 300269012092 active site 300269012093 P-loop; other site 300269012094 phosphorylation site [posttranslational modification] 300269012095 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 300269012096 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 300269012097 active site 300269012098 phosphorylation site [posttranslational modification] 300269012099 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 300269012100 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 300269012101 intersubunit interface [polypeptide binding]; other site 300269012102 active site 300269012103 Zn2+ binding site [ion binding]; other site 300269012104 L-rhamnose isomerase; Provisional; Region: PRK01076 300269012105 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 300269012106 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 300269012107 N- and C-terminal domain interface [polypeptide binding]; other site 300269012108 active site 300269012109 putative catalytic site [active] 300269012110 metal binding site [ion binding]; metal-binding site 300269012111 ATP binding site [chemical binding]; other site 300269012112 rhamnulokinase; Provisional; Region: rhaB; PRK10640 300269012113 carbohydrate binding site [chemical binding]; other site 300269012114 transcriptional activator RhaS; Provisional; Region: PRK13503 300269012115 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 300269012116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012118 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 300269012119 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 300269012120 superoxide dismutase; Provisional; Region: PRK10925 300269012121 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 300269012122 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 300269012123 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 300269012124 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 300269012125 MOSC domain; Region: MOSC; pfam03473 300269012126 3-alpha domain; Region: 3-alpha; pfam03475 300269012127 two-component sensor protein; Provisional; Region: cpxA; PRK09470 300269012128 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 300269012129 dimerization interface [polypeptide binding]; other site 300269012130 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 300269012131 dimer interface [polypeptide binding]; other site 300269012132 phosphorylation site [posttranslational modification] 300269012133 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 300269012134 ATP binding site [chemical binding]; other site 300269012135 Mg2+ binding site [ion binding]; other site 300269012136 G-X-G motif; other site 300269012137 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 300269012138 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 300269012139 active site 300269012140 intermolecular recognition site; other site 300269012141 dimerization interface [polypeptide binding]; other site 300269012142 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 300269012143 DNA binding site [nucleotide binding] 300269012144 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 300269012145 dimer interface [polypeptide binding]; other site 300269012146 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 300269012147 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 300269012148 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 300269012149 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 300269012150 active site 300269012151 ADP/pyrophosphate binding site [chemical binding]; other site 300269012152 dimerization interface [polypeptide binding]; other site 300269012153 allosteric effector site; other site 300269012154 fructose-1,6-bisphosphate binding site; other site 300269012155 sulfate transporter subunit; Provisional; Region: PRK10752 300269012156 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 300269012157 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 300269012158 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 300269012159 triosephosphate isomerase; Provisional; Region: PRK14567 300269012160 substrate binding site [chemical binding]; other site 300269012161 dimer interface [polypeptide binding]; other site 300269012162 catalytic triad [active] 300269012163 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 300269012164 Predicted membrane protein [Function unknown]; Region: COG3152 300269012165 hypothetical protein; Provisional; Region: PRK09981 300269012166 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 300269012167 Ligand Binding Site [chemical binding]; other site 300269012168 ferredoxin-NADP reductase; Provisional; Region: PRK10926 300269012169 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 300269012170 FAD binding pocket [chemical binding]; other site 300269012171 FAD binding motif [chemical binding]; other site 300269012172 phosphate binding motif [ion binding]; other site 300269012173 beta-alpha-beta structure motif; other site 300269012174 NAD binding pocket [chemical binding]; other site 300269012175 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 300269012176 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 300269012177 putative active site [active] 300269012178 glycerol kinase; Provisional; Region: glpK; PRK00047 300269012179 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 300269012180 N- and C-terminal domain interface [polypeptide binding]; other site 300269012181 active site 300269012182 MgATP binding site [chemical binding]; other site 300269012183 catalytic site [active] 300269012184 metal binding site [ion binding]; metal-binding site 300269012185 glycerol binding site [chemical binding]; other site 300269012186 homotetramer interface [polypeptide binding]; other site 300269012187 homodimer interface [polypeptide binding]; other site 300269012188 FBP binding site [chemical binding]; other site 300269012189 protein IIAGlc interface [polypeptide binding]; other site 300269012190 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 300269012191 amphipathic channel; other site 300269012192 Asn-Pro-Ala signature motifs; other site 300269012193 septal ring assembly protein ZapB; Provisional; Region: PRK15422 300269012194 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 300269012195 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 300269012196 UbiA prenyltransferase family; Region: UbiA; pfam01040 300269012197 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 300269012198 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 300269012199 Walker A motif; other site 300269012200 ATP binding site [chemical binding]; other site 300269012201 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 300269012202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 300269012203 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 300269012204 active site 300269012205 HslU subunit interaction site [polypeptide binding]; other site 300269012206 essential cell division protein FtsN; Provisional; Region: PRK10927 300269012207 cell division protein FtsN; Provisional; Region: PRK12757 300269012208 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269012209 DNA binding site [nucleotide binding] 300269012210 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 300269012211 domain linker motif; other site 300269012212 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 300269012213 dimerization interface [polypeptide binding]; other site 300269012214 ligand binding site [chemical binding]; other site 300269012215 primosome assembly protein PriA; Validated; Region: PRK05580 300269012216 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 300269012217 ATP binding site [chemical binding]; other site 300269012218 putative Mg++ binding site [ion binding]; other site 300269012219 helicase superfamily c-terminal domain; Region: HELICc; smart00490 300269012220 ATP-binding site [chemical binding]; other site 300269012221 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 300269012222 PAAR motif; Region: PAAR_motif; cl15808 300269012223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269012224 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269012225 Integrase core domain; Region: rve; pfam00665 300269012226 Integrase core domain; Region: rve_3; cl15866 300269012227 transposase/IS protein; Provisional; Region: PRK09183 300269012228 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 300269012229 Walker A motif; other site 300269012230 ATP binding site [chemical binding]; other site 300269012231 Walker B motif; other site 300269012232 arginine finger; other site 300269012233 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 300269012234 RHS Repeat; Region: RHS_repeat; pfam05593 300269012235 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 300269012236 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 300269012237 hypothetical protein; Provisional; Region: PRK10030 300269012238 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 300269012239 dimerization interface [polypeptide binding]; other site 300269012240 DNA binding site [nucleotide binding] 300269012241 corepressor binding sites; other site 300269012242 cystathionine gamma-synthase; Provisional; Region: PRK08045 300269012243 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 300269012244 homodimer interface [polypeptide binding]; other site 300269012245 substrate-cofactor binding pocket; other site 300269012246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269012247 catalytic residue [active] 300269012248 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 300269012249 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 300269012250 putative catalytic residues [active] 300269012251 putative nucleotide binding site [chemical binding]; other site 300269012252 putative aspartate binding site [chemical binding]; other site 300269012253 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 300269012254 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 300269012255 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 300269012256 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 300269012257 FAD binding site [chemical binding]; other site 300269012258 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 300269012259 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 300269012260 heme binding site [chemical binding]; other site 300269012261 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 300269012262 EamA-like transporter family; Region: EamA; pfam00892 300269012263 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 300269012264 EamA-like transporter family; Region: EamA; pfam00892 300269012265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 300269012266 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 300269012267 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 300269012268 dimer interface [polypeptide binding]; other site 300269012269 active site 300269012270 metal binding site [ion binding]; metal-binding site 300269012271 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 300269012272 active site 300269012273 intersubunit interactions; other site 300269012274 catalytic residue [active] 300269012275 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 300269012276 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 300269012277 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 300269012278 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 300269012279 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 300269012280 active site 300269012281 phosphorylation site [posttranslational modification] 300269012282 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 300269012283 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 300269012284 pyruvate formate lyase II activase; Provisional; Region: PRK10076 300269012285 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 300269012286 active site 300269012287 P-loop; other site 300269012288 phosphorylation site [posttranslational modification] 300269012289 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269012290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012291 hypothetical protein; Provisional; Region: PRK10649 300269012292 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 300269012293 Sulfatase; Region: Sulfatase; pfam00884 300269012294 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 300269012295 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 300269012296 acetylornithine deacetylase; Provisional; Region: PRK05111 300269012297 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 300269012298 metal binding site [ion binding]; metal-binding site 300269012299 putative dimer interface [polypeptide binding]; other site 300269012300 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 300269012301 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 300269012302 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 300269012303 nucleotide binding site [chemical binding]; other site 300269012304 N-acetyl-L-glutamate binding site [chemical binding]; other site 300269012305 argininosuccinate lyase; Provisional; Region: PRK04833 300269012306 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 300269012307 active sites [active] 300269012308 tetramer interface [polypeptide binding]; other site 300269012309 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 300269012310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 300269012311 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 300269012312 dimerization interface [polypeptide binding]; other site 300269012313 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 300269012314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 300269012315 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 300269012316 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 300269012317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269012318 hypothetical protein; Provisional; Region: PRK11056 300269012319 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 300269012320 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 300269012321 S-adenosylmethionine binding site [chemical binding]; other site 300269012322 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 300269012323 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 300269012324 N-terminal plug; other site 300269012325 ligand-binding site [chemical binding]; other site 300269012326 glutamate racemase; Provisional; Region: PRK00865 300269012327 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 300269012328 FAD binding domain; Region: FAD_binding_4; pfam01565 300269012329 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 300269012330 Biotin operon repressor [Transcription]; Region: BirA; COG1654 300269012331 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 300269012332 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 300269012333 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 300269012334 pantothenate kinase; Provisional; Region: PRK05439 300269012335 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 300269012336 ATP-binding site [chemical binding]; other site 300269012337 CoA-binding site [chemical binding]; other site 300269012338 Mg2+-binding site [ion binding]; other site 300269012339 elongation factor Tu; Reviewed; Region: PRK00049 300269012340 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 300269012341 G1 box; other site 300269012342 GEF interaction site [polypeptide binding]; other site 300269012343 GTP/Mg2+ binding site [chemical binding]; other site 300269012344 Switch I region; other site 300269012345 G2 box; other site 300269012346 G3 box; other site 300269012347 Switch II region; other site 300269012348 G4 box; other site 300269012349 G5 box; other site 300269012350 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 300269012351 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 300269012352 Antibiotic Binding Site [chemical binding]; other site 300269012353 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 300269012354 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 300269012355 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 300269012356 putative homodimer interface [polypeptide binding]; other site 300269012357 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 300269012358 heterodimer interface [polypeptide binding]; other site 300269012359 homodimer interface [polypeptide binding]; other site 300269012360 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 300269012361 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 300269012362 23S rRNA interface [nucleotide binding]; other site 300269012363 L7/L12 interface [polypeptide binding]; other site 300269012364 putative thiostrepton binding site; other site 300269012365 L25 interface [polypeptide binding]; other site 300269012366 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 300269012367 mRNA/rRNA interface [nucleotide binding]; other site 300269012368 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 300269012369 23S rRNA interface [nucleotide binding]; other site 300269012370 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 300269012371 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 300269012372 core dimer interface [polypeptide binding]; other site 300269012373 peripheral dimer interface [polypeptide binding]; other site 300269012374 L10 interface [polypeptide binding]; other site 300269012375 L11 interface [polypeptide binding]; other site 300269012376 putative EF-Tu interaction site [polypeptide binding]; other site 300269012377 putative EF-G interaction site [polypeptide binding]; other site 300269012378 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 300269012379 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 300269012380 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 300269012381 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 300269012382 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 300269012383 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 300269012384 RPB3 interaction site [polypeptide binding]; other site 300269012385 RPB1 interaction site [polypeptide binding]; other site 300269012386 RPB11 interaction site [polypeptide binding]; other site 300269012387 RPB10 interaction site [polypeptide binding]; other site 300269012388 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 300269012389 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 300269012390 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 300269012391 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 300269012392 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 300269012393 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 300269012394 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 300269012395 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 300269012396 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 300269012397 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 300269012398 DNA binding site [nucleotide binding] 300269012399 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 300269012400 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 300269012401 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 300269012402 FeS/SAM binding site; other site 300269012403 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 300269012404 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 300269012405 ThiS interaction site; other site 300269012406 putative active site [active] 300269012407 tetramer interface [polypeptide binding]; other site 300269012408 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 300269012409 thiS-thiF/thiG interaction site; other site 300269012410 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 300269012411 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 300269012412 ATP binding site [chemical binding]; other site 300269012413 substrate interface [chemical binding]; other site 300269012414 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 300269012415 thiamine phosphate binding site [chemical binding]; other site 300269012416 active site 300269012417 pyrophosphate binding site [ion binding]; other site 300269012418 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 300269012419 ThiC-associated domain; Region: ThiC-associated; pfam13667 300269012420 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 300269012421 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 300269012422 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 300269012423 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 300269012424 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 300269012425 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 300269012426 putative NADH binding site [chemical binding]; other site 300269012427 putative active site [active] 300269012428 nudix motif; other site 300269012429 putative metal binding site [ion binding]; other site 300269012430 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 300269012431 substrate binding site [chemical binding]; other site 300269012432 active site 300269012433 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 300269012434 Active_site [active] 300269012435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 300269012436 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 300269012437 IHF dimer interface [polypeptide binding]; other site 300269012438 IHF - DNA interface [nucleotide binding]; other site 300269012439 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 300269012440 zinc resistance protein; Provisional; Region: zraP; PRK11546 300269012441 dimer interface [polypeptide binding]; other site 300269012442 sensor protein ZraS; Provisional; Region: PRK10364 300269012443 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 300269012444 dimer interface [polypeptide binding]; other site 300269012445 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 300269012446 ATP binding site [chemical binding]; other site 300269012447 Mg2+ binding site [ion binding]; other site 300269012448 G-X-G motif; other site 300269012449 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 300269012450 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 300269012451 active site 300269012452 phosphorylation site [posttranslational modification] 300269012453 intermolecular recognition site; other site 300269012454 dimerization interface [polypeptide binding]; other site 300269012455 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 300269012456 Walker A motif; other site 300269012457 ATP binding site [chemical binding]; other site 300269012458 Walker B motif; other site 300269012459 arginine finger; other site 300269012460 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 300269012461 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 300269012462 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 300269012463 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 300269012464 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 300269012465 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 300269012466 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 300269012467 purine monophosphate binding site [chemical binding]; other site 300269012468 dimer interface [polypeptide binding]; other site 300269012469 putative catalytic residues [active] 300269012470 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 300269012471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 300269012472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269012473 Coenzyme A binding pocket [chemical binding]; other site 300269012474 homoserine O-succinyltransferase; Provisional; Region: PRK05368 300269012475 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 300269012476 proposed active site lysine [active] 300269012477 conserved cys residue [active] 300269012478 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 300269012479 active site 300269012480 isocitrate lyase; Provisional; Region: PRK15063 300269012481 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 300269012482 tetramer interface [polypeptide binding]; other site 300269012483 active site 300269012484 Mg2+/Mn2+ binding site [ion binding]; other site 300269012485 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012486 transcriptional repressor IclR; Provisional; Region: PRK11569 300269012487 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 300269012488 Bacterial transcriptional regulator; Region: IclR; pfam01614 300269012489 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 300269012490 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 300269012491 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 300269012492 substrate binding pocket [chemical binding]; other site 300269012493 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 300269012494 B12 binding site [chemical binding]; other site 300269012495 cobalt ligand [ion binding]; other site 300269012496 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 300269012497 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 300269012498 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 300269012499 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 300269012500 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 300269012501 active site pocket [active] 300269012502 oxyanion hole [active] 300269012503 catalytic triad [active] 300269012504 active site nucleophile [active] 300269012505 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 300269012506 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 300269012507 catalytic Zn binding site [ion binding]; other site 300269012508 putative NAD(P) binding site [chemical binding]; other site 300269012509 PTS system, mannose/fructose/sorbose family, IID component; Region: EIID-AGA; TIGR00828 300269012510 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 300269012511 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 300269012512 active pocket/dimerization site; other site 300269012513 active site 300269012514 phosphorylation site [posttranslational modification] 300269012515 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 300269012516 classical (c) SDRs; Region: SDR_c; cd05233 300269012517 NAD(P) binding site [chemical binding]; other site 300269012518 active site 300269012519 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 300269012520 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 300269012521 RNA binding surface [nucleotide binding]; other site 300269012522 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 300269012523 probable active site [active] 300269012524 hypothetical protein; Provisional; Region: PRK10515 300269012525 aspartate kinase III; Validated; Region: PRK09084 300269012526 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 300269012527 nucleotide binding site [chemical binding]; other site 300269012528 substrate binding site [chemical binding]; other site 300269012529 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 300269012530 lysine allosteric regulatory site; other site 300269012531 dimer interface [polypeptide binding]; other site 300269012532 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 300269012533 dimer interface [polypeptide binding]; other site 300269012534 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 300269012535 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 300269012536 active site 300269012537 dimer interface [polypeptide binding]; other site 300269012538 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 300269012539 dimer interface [polypeptide binding]; other site 300269012540 active site 300269012541 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 300269012542 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 300269012543 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 300269012544 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 300269012545 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 300269012546 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012547 putative substrate translocation pore; other site 300269012548 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012549 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 300269012550 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 300269012551 dimer interface [polypeptide binding]; other site 300269012552 conserved gate region; other site 300269012553 putative PBP binding loops; other site 300269012554 ABC-ATPase subunit interface; other site 300269012555 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 300269012556 dimer interface [polypeptide binding]; other site 300269012557 conserved gate region; other site 300269012558 putative PBP binding loops; other site 300269012559 ABC-ATPase subunit interface; other site 300269012560 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 300269012561 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 300269012562 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 300269012563 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 300269012564 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 300269012565 Walker A/P-loop; other site 300269012566 ATP binding site [chemical binding]; other site 300269012567 Q-loop/lid; other site 300269012568 ABC transporter signature motif; other site 300269012569 Walker B; other site 300269012570 D-loop; other site 300269012571 H-loop/switch region; other site 300269012572 TOBE domain; Region: TOBE_2; pfam08402 300269012573 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 300269012574 trimer interface; other site 300269012575 sugar binding site [chemical binding]; other site 300269012576 maltose regulon periplasmic protein; Provisional; Region: PRK10564 300269012577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269012578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269012579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269012580 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269012581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269012582 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269012583 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 300269012584 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 300269012585 UbiA prenyltransferase family; Region: UbiA; pfam01040 300269012586 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 300269012587 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 300269012588 putative acyl-acceptor binding pocket; other site 300269012589 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 300269012590 LexA repressor; Validated; Region: PRK00215 300269012591 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 300269012592 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 300269012593 Catalytic site [active] 300269012594 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 300269012595 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 300269012596 hypothetical protein; Provisional; Region: PRK10428 300269012597 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 300269012598 metal binding site 2 [ion binding]; metal-binding site 300269012599 putative DNA binding helix; other site 300269012600 metal binding site 1 [ion binding]; metal-binding site 300269012601 dimer interface [polypeptide binding]; other site 300269012602 structural Zn2+ binding site [ion binding]; other site 300269012603 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 300269012604 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 300269012605 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 300269012606 FMN binding site [chemical binding]; other site 300269012607 active site 300269012608 catalytic residues [active] 300269012609 substrate binding site [chemical binding]; other site 300269012610 phage shock protein G; Reviewed; Region: pspG; PRK09459 300269012611 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 300269012612 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 300269012613 NADP binding site [chemical binding]; other site 300269012614 dimer interface [polypeptide binding]; other site 300269012615 replicative DNA helicase; Provisional; Region: PRK08006 300269012616 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 300269012617 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 300269012618 Walker A motif; other site 300269012619 ATP binding site [chemical binding]; other site 300269012620 Walker B motif; other site 300269012621 DNA binding loops [nucleotide binding] 300269012622 alanine racemase; Reviewed; Region: alr; PRK00053 300269012623 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 300269012624 active site 300269012625 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 300269012626 substrate binding site [chemical binding]; other site 300269012627 catalytic residues [active] 300269012628 dimer interface [polypeptide binding]; other site 300269012629 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 300269012630 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 300269012631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269012632 homodimer interface [polypeptide binding]; other site 300269012633 catalytic residue [active] 300269012634 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 300269012635 active site 300269012636 motif I; other site 300269012637 motif II; other site 300269012638 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 300269012639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 300269012640 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 300269012641 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 300269012642 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 300269012643 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 300269012644 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 300269012645 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 300269012646 dimer interface [polypeptide binding]; other site 300269012647 ssDNA binding site [nucleotide binding]; other site 300269012648 tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269012649 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 300269012650 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 300269012651 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 300269012652 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 300269012653 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 300269012654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012655 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012656 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 300269012657 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 300269012658 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 300269012659 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 300269012660 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 300269012661 DNA binding residues [nucleotide binding] 300269012662 dimer interface [polypeptide binding]; other site 300269012663 [2Fe-2S] cluster binding site [ion binding]; other site 300269012664 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012665 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 300269012666 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 300269012667 Na binding site [ion binding]; other site 300269012668 acetyl-CoA synthetase; Provisional; Region: PRK00174 300269012669 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 300269012670 active site 300269012671 CoA binding site [chemical binding]; other site 300269012672 acyl-activating enzyme (AAE) consensus motif; other site 300269012673 AMP binding site [chemical binding]; other site 300269012674 acetate binding site [chemical binding]; other site 300269012675 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 300269012676 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 300269012677 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 300269012678 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 300269012679 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 300269012680 heme lyase subunit NrfE; Provisional; Region: PRK10369 300269012681 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 300269012682 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 300269012683 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 300269012684 binding surface 300269012685 TPR motif; other site 300269012686 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 300269012687 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 300269012688 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 300269012689 Sel1-like repeats; Region: SEL1; smart00671 300269012690 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 300269012691 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 300269012692 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 300269012693 multidrug resistance protein MdtN; Provisional; Region: PRK10476 300269012694 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 300269012695 HlyD family secretion protein; Region: HlyD_3; pfam13437 300269012696 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 300269012697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 300269012698 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 300269012699 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 300269012700 putative hydrolase; Provisional; Region: PRK02113 300269012701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269012702 Coenzyme A binding pocket [chemical binding]; other site 300269012703 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 300269012704 AAA domain; Region: AAA_18; pfam13238 300269012705 active site 300269012706 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 300269012707 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 300269012708 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 300269012709 active site 300269012710 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 300269012711 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 300269012712 Walker A/P-loop; other site 300269012713 ATP binding site [chemical binding]; other site 300269012714 Q-loop/lid; other site 300269012715 ABC transporter signature motif; other site 300269012716 Walker B; other site 300269012717 D-loop; other site 300269012718 H-loop/switch region; other site 300269012719 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 300269012720 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 300269012721 Walker A/P-loop; other site 300269012722 ATP binding site [chemical binding]; other site 300269012723 Q-loop/lid; other site 300269012724 ABC transporter signature motif; other site 300269012725 Walker B; other site 300269012726 D-loop; other site 300269012727 H-loop/switch region; other site 300269012728 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 300269012729 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 300269012730 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 300269012731 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 300269012732 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 300269012733 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 300269012734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269012735 DNA-binding site [nucleotide binding]; DNA binding site 300269012736 UTRA domain; Region: UTRA; pfam07702 300269012737 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 300269012738 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 300269012739 dimer interface [polypeptide binding]; other site 300269012740 conserved gate region; other site 300269012741 putative PBP binding loops; other site 300269012742 ABC-ATPase subunit interface; other site 300269012743 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 300269012744 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 300269012745 substrate binding pocket [chemical binding]; other site 300269012746 membrane-bound complex binding site; other site 300269012747 hinge residues; other site 300269012748 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 300269012749 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 300269012750 Walker A/P-loop; other site 300269012751 ATP binding site [chemical binding]; other site 300269012752 Q-loop/lid; other site 300269012753 ABC transporter signature motif; other site 300269012754 Walker B; other site 300269012755 D-loop; other site 300269012756 H-loop/switch region; other site 300269012757 hypothetical protein; Provisional; Region: PRK10220 300269012758 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 300269012759 PhnA protein; Region: PhnA; pfam03831 300269012760 hypothetical protein; Provisional; Region: PRK09866 300269012761 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 300269012762 G1 box; other site 300269012763 GTP/Mg2+ binding site [chemical binding]; other site 300269012764 G2 box; other site 300269012765 Switch I region; other site 300269012766 G3 box; other site 300269012767 Switch II region; other site 300269012768 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 300269012769 G2 box; other site 300269012770 Switch I region; other site 300269012771 G3 box; other site 300269012772 Switch II region; other site 300269012773 G4 box; other site 300269012774 G5 box; other site 300269012775 YjcZ-like protein; Region: YjcZ; pfam13990 300269012776 proline/glycine betaine transporter; Provisional; Region: PRK10642 300269012777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012778 putative substrate translocation pore; other site 300269012779 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 300269012780 sensor protein BasS/PmrB; Provisional; Region: PRK10755 300269012781 HAMP domain; Region: HAMP; pfam00672 300269012782 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 300269012783 dimer interface [polypeptide binding]; other site 300269012784 phosphorylation site [posttranslational modification] 300269012785 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 300269012786 ATP binding site [chemical binding]; other site 300269012787 Mg2+ binding site [ion binding]; other site 300269012788 G-X-G motif; other site 300269012789 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 300269012790 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 300269012791 active site 300269012792 phosphorylation site [posttranslational modification] 300269012793 intermolecular recognition site; other site 300269012794 dimerization interface [polypeptide binding]; other site 300269012795 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 300269012796 DNA binding site [nucleotide binding] 300269012797 putative metal dependent hydrolase; Provisional; Region: PRK11598 300269012798 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 300269012799 Sulfatase; Region: Sulfatase; pfam00884 300269012800 arginine:agmatin antiporter; Provisional; Region: PRK10644 300269012801 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269012802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012803 arginine decarboxylase; Provisional; Region: PRK15029 300269012804 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 300269012805 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 300269012806 homodimer interface [polypeptide binding]; other site 300269012807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269012808 catalytic residue [active] 300269012809 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 300269012810 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 300269012811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269012813 alpha-galactosidase; Provisional; Region: PRK15076 300269012814 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 300269012815 NAD binding site [chemical binding]; other site 300269012816 sugar binding site [chemical binding]; other site 300269012817 divalent metal binding site [ion binding]; other site 300269012818 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269012819 dimer interface [polypeptide binding]; other site 300269012820 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269012821 HTH-like domain; Region: HTH_21; pfam13276 300269012822 Integrase core domain; Region: rve; pfam00665 300269012823 Integrase core domain; Region: rve_3; pfam13683 300269012824 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012825 hypothetical protein; Provisional; Region: PRK09867 300269012826 fumarate hydratase; Provisional; Region: PRK15389 300269012827 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 300269012828 Fumarase C-terminus; Region: Fumerase_C; pfam05683 300269012829 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 300269012830 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 300269012831 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 300269012832 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 300269012833 active site 300269012834 phosphorylation site [posttranslational modification] 300269012835 intermolecular recognition site; other site 300269012836 dimerization interface [polypeptide binding]; other site 300269012837 Transcriptional regulator; Region: CitT; pfam12431 300269012838 sensory histidine kinase DcuS; Provisional; Region: PRK11086 300269012839 PAS domain; Region: PAS; smart00091 300269012840 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 300269012841 ATP binding site [chemical binding]; other site 300269012842 Mg2+ binding site [ion binding]; other site 300269012843 G-X-G motif; other site 300269012844 Uncharacterized conserved protein [Function unknown]; Region: COG3592 300269012845 Predicted acetyltransferase [General function prediction only]; Region: COG2388 300269012846 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 300269012847 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 300269012848 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 300269012849 dimer interface [polypeptide binding]; other site 300269012850 putative anticodon binding site; other site 300269012851 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 300269012852 motif 1; other site 300269012853 active site 300269012854 motif 2; other site 300269012855 motif 3; other site 300269012856 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 300269012857 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269012858 putative substrate translocation pore; other site 300269012859 POT family; Region: PTR2; pfam00854 300269012860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269012861 Integrase core domain; Region: rve; pfam00665 300269012862 Integrase core domain; Region: rve_3; pfam13683 300269012863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269012864 Transposase; Region: HTH_Tnp_1; pfam01527 300269012865 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269012866 HTH-like domain; Region: HTH_21; pfam13276 300269012867 Integrase core domain; Region: rve; pfam00665 300269012868 Integrase core domain; Region: rve_3; pfam13683 300269012869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269012870 Transposase; Region: HTH_Tnp_1; pfam01527 300269012871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269012872 Integrase core domain; Region: rve; pfam00665 300269012873 Integrase core domain; Region: rve_3; pfam13683 300269012874 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269012875 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269012876 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269012877 putative transcriptional regulator; Provisional; Region: PRK11640 300269012878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269012879 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 300269012880 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 300269012881 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 300269012882 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 300269012883 DsbD alpha interface [polypeptide binding]; other site 300269012884 catalytic residues [active] 300269012885 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 300269012886 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 300269012887 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 300269012888 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 300269012889 Aspartase; Region: Aspartase; cd01357 300269012890 active sites [active] 300269012891 tetramer interface [polypeptide binding]; other site 300269012892 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 300269012893 putative transporter; Provisional; Region: PRK11021 300269012894 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 300269012895 oligomerisation interface [polypeptide binding]; other site 300269012896 mobile loop; other site 300269012897 roof hairpin; other site 300269012898 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 300269012899 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 300269012900 ring oligomerisation interface [polypeptide binding]; other site 300269012901 ATP/Mg binding site [chemical binding]; other site 300269012902 stacking interactions; other site 300269012903 hinge regions; other site 300269012904 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 300269012905 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012906 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 300269012907 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 300269012908 FeS/SAM binding site; other site 300269012909 elongation factor P; Validated; Region: PRK00529 300269012910 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 300269012911 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 300269012912 RNA binding site [nucleotide binding]; other site 300269012913 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 300269012914 RNA binding site [nucleotide binding]; other site 300269012915 entericidin A; Provisional; Region: PRK09810 300269012916 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 300269012917 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 300269012918 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 300269012919 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 300269012920 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 300269012921 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 300269012922 Iron-sulfur protein interface; other site 300269012923 proximal quinone binding site [chemical binding]; other site 300269012924 C-subunit interface; other site 300269012925 distal quinone binding site; other site 300269012926 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 300269012927 D-subunit interface [polypeptide binding]; other site 300269012928 Iron-sulfur protein interface; other site 300269012929 proximal quinone binding site [chemical binding]; other site 300269012930 distal quinone binding site [chemical binding]; other site 300269012931 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 300269012932 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 300269012933 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 300269012934 L-aspartate oxidase; Provisional; Region: PRK06175 300269012935 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 300269012936 poxB regulator PoxA; Provisional; Region: PRK09350 300269012937 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 300269012938 motif 1; other site 300269012939 dimer interface [polypeptide binding]; other site 300269012940 active site 300269012941 motif 2; other site 300269012942 motif 3; other site 300269012943 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269012944 putative mechanosensitive channel protein; Provisional; Region: PRK10929 300269012945 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 300269012946 DNA-binding site [nucleotide binding]; DNA binding site 300269012947 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 300269012948 Mechanosensitive ion channel; Region: MS_channel; pfam00924 300269012949 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 300269012950 GTPase RsgA; Reviewed; Region: PRK12288 300269012951 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 300269012952 RNA binding site [nucleotide binding]; other site 300269012953 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 300269012954 GTPase/Zn-binding domain interface [polypeptide binding]; other site 300269012955 GTP/Mg2+ binding site [chemical binding]; other site 300269012956 G4 box; other site 300269012957 G5 box; other site 300269012958 G1 box; other site 300269012959 Switch I region; other site 300269012960 G2 box; other site 300269012961 G3 box; other site 300269012962 Switch II region; other site 300269012963 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 300269012964 catalytic site [active] 300269012965 putative active site [active] 300269012966 putative substrate binding site [chemical binding]; other site 300269012967 dimer interface [polypeptide binding]; other site 300269012968 epoxyqueuosine reductase; Region: TIGR00276 300269012969 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 300269012970 putative carbohydrate kinase; Provisional; Region: PRK10565 300269012971 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 300269012972 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 300269012973 putative substrate binding site [chemical binding]; other site 300269012974 putative ATP binding site [chemical binding]; other site 300269012975 ADP-binding protein; Provisional; Region: PRK10646 300269012976 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 300269012977 AMIN domain; Region: AMIN; pfam11741 300269012978 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 300269012979 active site 300269012980 metal binding site [ion binding]; metal-binding site 300269012981 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 300269012982 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 300269012983 ATP binding site [chemical binding]; other site 300269012984 Mg2+ binding site [ion binding]; other site 300269012985 G-X-G motif; other site 300269012986 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 300269012987 ATP binding site [chemical binding]; other site 300269012988 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 300269012989 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 300269012990 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 300269012991 bacterial Hfq-like; Region: Hfq; cd01716 300269012992 hexamer interface [polypeptide binding]; other site 300269012993 Sm1 motif; other site 300269012994 RNA binding site [nucleotide binding]; other site 300269012995 Sm2 motif; other site 300269012996 GTPase HflX; Provisional; Region: PRK11058 300269012997 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 300269012998 HflX GTPase family; Region: HflX; cd01878 300269012999 G1 box; other site 300269013000 GTP/Mg2+ binding site [chemical binding]; other site 300269013001 Switch I region; other site 300269013002 G2 box; other site 300269013003 G3 box; other site 300269013004 Switch II region; other site 300269013005 G4 box; other site 300269013006 G5 box; other site 300269013007 FtsH protease regulator HflK; Provisional; Region: PRK10930 300269013008 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 300269013009 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 300269013010 FtsH protease regulator HflC; Provisional; Region: PRK11029 300269013011 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 300269013012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 300269013013 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 300269013014 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 300269013015 GDP-binding site [chemical binding]; other site 300269013016 ACT binding site; other site 300269013017 IMP binding site; other site 300269013018 Predicted transcriptional regulator [Transcription]; Region: COG1959 300269013019 transcriptional repressor NsrR; Provisional; Region: PRK11014 300269013020 exoribonuclease R; Provisional; Region: PRK11642 300269013021 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 300269013022 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 300269013023 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 300269013024 RNB domain; Region: RNB; pfam00773 300269013025 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 300269013026 RNA binding site [nucleotide binding]; other site 300269013027 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 300269013028 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 300269013029 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 300269013030 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013031 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 300269013032 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 300269013033 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 300269013034 FAD binding site [chemical binding]; other site 300269013035 substrate binding site [chemical binding]; other site 300269013036 catalytic residues [active] 300269013037 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269013038 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 300269013039 esterase; Provisional; Region: PRK10566 300269013040 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 300269013041 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 300269013042 transcriptional repressor UlaR; Provisional; Region: PRK13509 300269013043 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 300269013044 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 300269013045 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 300269013046 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 300269013047 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 300269013048 active site 300269013049 P-loop; other site 300269013050 phosphorylation site [posttranslational modification] 300269013051 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 300269013052 active site 300269013053 phosphorylation site [posttranslational modification] 300269013054 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 300269013055 active site 300269013056 dimer interface [polypeptide binding]; other site 300269013057 magnesium binding site [ion binding]; other site 300269013058 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 300269013059 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 300269013060 AP (apurinic/apyrimidinic) site pocket; other site 300269013061 DNA interaction; other site 300269013062 Metal-binding active site; metal-binding site 300269013063 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 300269013064 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 300269013065 intersubunit interface [polypeptide binding]; other site 300269013066 active site 300269013067 Zn2+ binding site [ion binding]; other site 300269013068 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 300269013069 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 300269013070 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 300269013071 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 300269013072 dimer interface [polypeptide binding]; other site 300269013073 ssDNA binding site [nucleotide binding]; other site 300269013074 tetramer (dimer of dimers) interface [polypeptide binding]; other site 300269013075 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 300269013076 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 300269013077 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 300269013078 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 300269013079 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 300269013080 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 300269013081 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013082 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 300269013083 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 300269013084 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 300269013085 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 300269013086 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 300269013087 Hemerythrin-like domain; Region: Hr-like; cd12108 300269013088 Fe binding site [ion binding]; other site 300269013089 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 300269013090 EamA-like transporter family; Region: EamA; pfam00892 300269013091 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 300269013092 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 300269013093 NADP binding site [chemical binding]; other site 300269013094 Predicted transcriptional regulators [Transcription]; Region: COG1733 300269013095 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 300269013096 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 300269013097 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 300269013098 active site 300269013099 metal binding site [ion binding]; metal-binding site 300269013100 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 300269013101 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 300269013102 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 300269013103 active site 300269013104 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 300269013105 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 300269013106 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 300269013107 Domain of unknown function DUF21; Region: DUF21; pfam01595 300269013108 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 300269013109 Transporter associated domain; Region: CorC_HlyC; smart01091 300269013110 methionine sulfoxide reductase A; Provisional; Region: PRK00058 300269013111 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 300269013112 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 300269013113 Surface antigen; Region: Bac_surface_Ag; pfam01103 300269013114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 300269013115 Family of unknown function (DUF490); Region: DUF490; pfam04357 300269013116 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 300269013117 putative active site pocket [active] 300269013118 dimerization interface [polypeptide binding]; other site 300269013119 putative catalytic residue [active] 300269013120 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 300269013121 dimer interface [polypeptide binding]; other site 300269013122 substrate binding site [chemical binding]; other site 300269013123 metal binding sites [ion binding]; metal-binding site 300269013124 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 300269013125 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 300269013126 putative ligand binding site [chemical binding]; other site 300269013127 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 300269013128 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 300269013129 Walker A/P-loop; other site 300269013130 ATP binding site [chemical binding]; other site 300269013131 Q-loop/lid; other site 300269013132 ABC transporter signature motif; other site 300269013133 Walker B; other site 300269013134 D-loop; other site 300269013135 H-loop/switch region; other site 300269013136 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 300269013137 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269013138 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 300269013139 TM-ABC transporter signature motif; other site 300269013140 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 300269013141 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 300269013142 TM-ABC transporter signature motif; other site 300269013143 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 300269013144 AMP binding site [chemical binding]; other site 300269013145 metal binding site [ion binding]; metal-binding site 300269013146 active site 300269013147 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 300269013148 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 300269013149 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 300269013150 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 300269013151 hypothetical protein; Provisional; Region: PRK05255 300269013152 peptidase PmbA; Provisional; Region: PRK11040 300269013153 Cytochrome b562; Region: Cytochrom_B562; cl01546 300269013154 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 300269013155 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 300269013156 FeS/SAM binding site; other site 300269013157 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 300269013158 ATP cone domain; Region: ATP-cone; pfam03477 300269013159 Class III ribonucleotide reductase; Region: RNR_III; cd01675 300269013160 effector binding site; other site 300269013161 active site 300269013162 Zn binding site [ion binding]; other site 300269013163 glycine loop; other site 300269013164 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 300269013165 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 300269013166 Ca binding site [ion binding]; other site 300269013167 active site 300269013168 catalytic site [active] 300269013169 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 300269013170 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 300269013171 active site turn [active] 300269013172 phosphorylation site [posttranslational modification] 300269013173 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 300269013174 trehalose repressor; Provisional; Region: treR; PRK09492 300269013175 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269013176 DNA binding site [nucleotide binding] 300269013177 domain linker motif; other site 300269013178 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 300269013179 dimerization interface [polypeptide binding]; other site 300269013180 ligand binding site [chemical binding]; other site 300269013181 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 300269013182 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 300269013183 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 300269013184 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 300269013185 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 300269013186 motif II; other site 300269013187 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 300269013188 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 300269013189 homotrimer interaction site [polypeptide binding]; other site 300269013190 putative active site [active] 300269013191 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 300269013192 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 300269013193 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 300269013194 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 300269013195 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 300269013196 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 300269013197 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 300269013198 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 300269013199 homotrimer interaction site [polypeptide binding]; other site 300269013200 putative active site [active] 300269013201 oxidoreductase; Provisional; Region: PRK12742 300269013202 classical (c) SDRs; Region: SDR_c; cd05233 300269013203 NAD(P) binding site [chemical binding]; other site 300269013204 active site 300269013205 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013206 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013207 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 300269013208 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 300269013209 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 300269013210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 300269013211 RNase E inhibitor protein; Provisional; Region: PRK11191 300269013212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269013213 Coenzyme A binding pocket [chemical binding]; other site 300269013214 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013216 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269013217 Integrase core domain; Region: rve; pfam00665 300269013218 Integrase core domain; Region: rve_3; cl15866 300269013219 transposase/IS protein; Provisional; Region: PRK09183 300269013220 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 300269013221 Walker A motif; other site 300269013222 ATP binding site [chemical binding]; other site 300269013223 Walker B motif; other site 300269013224 arginine finger; other site 300269013225 Predicted membrane protein [Function unknown]; Region: COG4269 300269013226 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 300269013227 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 300269013228 HIGH motif; other site 300269013229 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 300269013230 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 300269013231 active site 300269013232 KMSKS motif; other site 300269013233 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 300269013234 tRNA binding surface [nucleotide binding]; other site 300269013235 anticodon binding site; other site 300269013236 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 300269013237 DNA polymerase III subunit chi; Validated; Region: PRK05728 300269013238 multifunctional aminopeptidase A; Provisional; Region: PRK00913 300269013239 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 300269013240 interface (dimer of trimers) [polypeptide binding]; other site 300269013241 Substrate-binding/catalytic site; other site 300269013242 Zn-binding sites [ion binding]; other site 300269013243 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 300269013244 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 300269013245 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 300269013246 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 300269013247 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 300269013248 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 300269013249 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 300269013250 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 300269013251 DNA binding site [nucleotide binding] 300269013252 domain linker motif; other site 300269013253 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 300269013254 putative dimerization interface [polypeptide binding]; other site 300269013255 putative ligand binding site [chemical binding]; other site 300269013256 fructuronate transporter; Provisional; Region: PRK10034; cl15264 300269013257 gluconate transporter; Region: gntP; TIGR00791 300269013258 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 300269013259 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 300269013260 NADP binding site [chemical binding]; other site 300269013261 homodimer interface [polypeptide binding]; other site 300269013262 active site 300269013263 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 300269013264 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 300269013265 putative NAD(P) binding site [chemical binding]; other site 300269013266 catalytic Zn binding site [ion binding]; other site 300269013267 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 300269013268 ATP-binding site [chemical binding]; other site 300269013269 Gluconate-6-phosphate binding site [chemical binding]; other site 300269013270 Shikimate kinase; Region: SKI; pfam01202 300269013271 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 300269013272 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 300269013273 putative NAD(P) binding site [chemical binding]; other site 300269013274 putative substrate binding site [chemical binding]; other site 300269013275 catalytic Zn binding site [ion binding]; other site 300269013276 structural Zn binding site [ion binding]; other site 300269013277 dimer interface [polypeptide binding]; other site 300269013278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013279 Integrase core domain; Region: rve; pfam00665 300269013280 Integrase core domain; Region: rve_3; pfam13683 300269013281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013282 Transposase; Region: HTH_Tnp_1; pfam01527 300269013283 putative transposase OrfB; Reviewed; Region: PHA02517 300269013284 HTH-like domain; Region: HTH_21; pfam13276 300269013285 Integrase core domain; Region: rve; pfam00665 300269013286 Integrase core domain; Region: rve_3; pfam13683 300269013287 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 300269013288 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 300269013289 Walker A/P-loop; other site 300269013290 ATP binding site [chemical binding]; other site 300269013291 Q-loop/lid; other site 300269013292 ABC transporter signature motif; other site 300269013293 Walker B; other site 300269013294 D-loop; other site 300269013295 H-loop/switch region; other site 300269013296 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 300269013297 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 300269013298 ABC-ATPase subunit interface; other site 300269013299 dimer interface [polypeptide binding]; other site 300269013300 putative PBP binding regions; other site 300269013301 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 300269013302 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 300269013303 dimer interface [polypeptide binding]; other site 300269013304 ABC-ATPase subunit interface; other site 300269013305 putative PBP binding regions; other site 300269013306 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 300269013307 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 300269013308 siderophore binding site; other site 300269013309 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 300269013310 Secretin and TonB N terminus short domain; Region: STN; smart00965 300269013311 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 300269013312 N-terminal plug; other site 300269013313 ligand-binding site [chemical binding]; other site 300269013314 fec operon regulator FecR; Reviewed; Region: PRK09774 300269013315 FecR protein; Region: FecR; pfam04773 300269013316 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 300269013317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 300269013318 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 300269013319 DNA binding residues [nucleotide binding] 300269013320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 300269013321 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 300269013322 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 300269013323 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013324 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013325 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013326 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013327 Domain of unknown function (DUF303); Region: DUF303; pfam03629 300269013328 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 300269013329 Kelch motif; Region: Kelch_1; pfam01344 300269013330 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 300269013331 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013332 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013333 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013335 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013336 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013337 mannonate dehydratase; Region: uxuA; TIGR00695 300269013338 mannonate dehydratase; Provisional; Region: PRK03906 300269013339 D-mannonate oxidoreductase; Provisional; Region: PRK15037 300269013340 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 300269013341 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 300269013342 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 300269013343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 300269013344 DNA-binding site [nucleotide binding]; DNA binding site 300269013345 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269013346 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 300269013347 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013348 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 300269013349 active site 300269013350 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013351 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013352 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 300269013353 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 300269013354 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 300269013355 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 300269013356 Uncharacterized small protein [Function unknown]; Region: COG2879 300269013357 carbon starvation protein A; Provisional; Region: PRK15015 300269013358 Carbon starvation protein CstA; Region: CstA; pfam02554 300269013359 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 300269013360 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 300269013361 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 300269013362 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 300269013363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013364 Integrase core domain; Region: rve; pfam00665 300269013365 Integrase core domain; Region: rve_3; pfam13683 300269013366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013367 Transposase; Region: HTH_Tnp_1; pfam01527 300269013368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269013369 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 300269013370 putative substrate translocation pore; other site 300269013371 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 300269013372 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 300269013373 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 300269013374 putative substrate binding pocket [chemical binding]; other site 300269013375 trimer interface [polypeptide binding]; other site 300269013376 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 300269013377 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 300269013378 putative active site [active] 300269013379 putative metal binding site [ion binding]; other site 300269013380 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 300269013381 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 300269013382 NAD binding site [chemical binding]; other site 300269013383 catalytic residues [active] 300269013384 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 300269013385 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 300269013386 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 300269013387 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 300269013388 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 300269013389 Transcriptional regulators [Transcription]; Region: GntR; COG1802 300269013390 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 300269013391 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 300269013392 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 300269013393 putative NAD(P) binding site [chemical binding]; other site 300269013394 catalytic Zn binding site [ion binding]; other site 300269013395 structural Zn binding site [ion binding]; other site 300269013396 phosphoglycerol transferase I; Provisional; Region: PRK03776 300269013397 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 300269013398 hypothetical protein; Provisional; Region: PRK11667 300269013399 DNA replication protein DnaC; Validated; Region: PRK07952 300269013400 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 300269013401 Walker A motif; other site 300269013402 ATP binding site [chemical binding]; other site 300269013403 Walker B motif; other site 300269013404 primosomal protein DnaI; Provisional; Region: PRK02854 300269013405 hypothetical protein; Provisional; Region: PRK09917 300269013406 Uncharacterized conserved protein [Function unknown]; Region: COG2966 300269013407 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 300269013408 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013409 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013410 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 300269013411 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 300269013412 DNA binding residues [nucleotide binding] 300269013413 dimerization interface [polypeptide binding]; other site 300269013414 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 300269013415 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 300269013416 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 300269013417 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 300269013418 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 300269013419 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 300269013420 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 300269013421 S-adenosylmethionine binding site [chemical binding]; other site 300269013422 DNA polymerase III subunit psi; Validated; Region: PRK06856 300269013423 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 300269013424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 300269013425 Coenzyme A binding pocket [chemical binding]; other site 300269013426 dUMP phosphatase; Provisional; Region: PRK09449 300269013427 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 300269013428 motif II; other site 300269013429 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 300269013430 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 300269013431 G1 box; other site 300269013432 putative GEF interaction site [polypeptide binding]; other site 300269013433 GTP/Mg2+ binding site [chemical binding]; other site 300269013434 Switch I region; other site 300269013435 G2 box; other site 300269013436 G3 box; other site 300269013437 Switch II region; other site 300269013438 G4 box; other site 300269013439 G5 box; other site 300269013440 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 300269013441 periplasmic protein; Provisional; Region: PRK10568 300269013442 BON domain; Region: BON; pfam04972 300269013443 BON domain; Region: BON; pfam04972 300269013444 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 300269013445 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 300269013446 active site 300269013447 nucleophile elbow; other site 300269013448 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 300269013449 active site 300269013450 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 300269013451 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 300269013452 FeS/SAM binding site; other site 300269013453 hypothetical protein; Provisional; Region: PRK10977 300269013454 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 300269013455 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 300269013456 intersubunit interface [polypeptide binding]; other site 300269013457 active site 300269013458 catalytic residue [active] 300269013459 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 300269013460 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 300269013461 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 300269013462 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 300269013463 phosphopentomutase; Provisional; Region: PRK05362 300269013464 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 300269013465 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 300269013466 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 300269013467 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 300269013468 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 300269013469 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 300269013470 hypothetical protein; Provisional; Region: PRK11246 300269013471 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 300269013472 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 300269013473 motif II; other site 300269013474 DNA repair protein RadA; Region: sms; TIGR00416 300269013475 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 300269013476 Walker A motif/ATP binding site; other site 300269013477 ATP binding site [chemical binding]; other site 300269013478 Walker B motif; other site 300269013479 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 300269013480 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 300269013481 non-specific DNA binding site [nucleotide binding]; other site 300269013482 salt bridge; other site 300269013483 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 300269013484 sequence-specific DNA binding site [nucleotide binding]; other site 300269013485 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 300269013486 active site 300269013487 (T/H)XGH motif; other site 300269013488 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 300269013489 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 300269013490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 300269013491 Walker A/P-loop; other site 300269013492 ATP binding site [chemical binding]; other site 300269013493 Q-loop/lid; other site 300269013494 ABC transporter signature motif; other site 300269013495 Walker B; other site 300269013496 D-loop; other site 300269013497 H-loop/switch region; other site 300269013498 ABC transporter; Region: ABC_tran_2; pfam12848 300269013499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 300269013500 lytic murein transglycosylase; Provisional; Region: PRK11619 300269013501 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 300269013502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269013503 catalytic residue [active] 300269013504 Trp operon repressor; Provisional; Region: PRK01381 300269013505 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 300269013506 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 300269013507 catalytic core [active] 300269013508 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 300269013509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269013510 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 300269013511 hypothetical protein; Provisional; Region: PRK10756 300269013512 CreA protein; Region: CreA; pfam05981 300269013513 DNA-binding response regulator CreB; Provisional; Region: PRK11083 300269013514 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 300269013515 active site 300269013516 phosphorylation site [posttranslational modification] 300269013517 intermolecular recognition site; other site 300269013518 dimerization interface [polypeptide binding]; other site 300269013519 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 300269013520 DNA binding site [nucleotide binding] 300269013521 sensory histidine kinase CreC; Provisional; Region: PRK11100 300269013522 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 300269013523 dimerization interface [polypeptide binding]; other site 300269013524 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 300269013525 dimer interface [polypeptide binding]; other site 300269013526 phosphorylation site [posttranslational modification] 300269013527 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 300269013528 ATP binding site [chemical binding]; other site 300269013529 Mg2+ binding site [ion binding]; other site 300269013530 G-X-G motif; other site 300269013531 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 300269013532 two-component response regulator; Provisional; Region: PRK11173 300269013533 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 300269013534 active site 300269013535 phosphorylation site [posttranslational modification] 300269013536 intermolecular recognition site; other site 300269013537 dimerization interface [polypeptide binding]; other site 300269013538 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 300269013539 DNA binding site [nucleotide binding] 300269013540 putative RNA methyltransferase; Provisional; Region: PRK10433 300269013541 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 300269013542 Integrase core domain; Region: rve_3; cl15866 300269013543 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 300269013544 active site 300269013545 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 300269013546 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013547 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013548 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013550 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013551 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 300269013552 Salmonella virulence-associated 28kDa protein; Region: VRP3; pfam03536 300269013553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 300269013554 Transposase; Region: DDE_Tnp_ISL3; pfam01610 300269013555 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013556 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013557 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013559 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013560 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 300269013561 Putative transposase; Region: Y2_Tnp; pfam04986 300269013562 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269013563 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013564 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 300269013565 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269013566 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 300269013567 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 300269013568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269013569 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 300269013570 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269013571 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 300269013572 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 300269013573 IpaB/EvcA family; Region: IpaB_EvcA; pfam03278 300269013574 Transposase; Region: HTH_Tnp_1; cl17663 300269013575 putative transposase OrfB; Reviewed; Region: PHA02517 300269013576 HTH-like domain; Region: HTH_21; pfam13276 300269013577 Integrase core domain; Region: rve; pfam00665 300269013578 Integrase core domain; Region: rve_2; pfam13333 300269013579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013580 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269013581 Integrase core domain; Region: rve; pfam00665 300269013582 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013583 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013584 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269013586 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013587 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 300269013588 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 300269013589 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 300269013590 Magnesium ion binding site [ion binding]; other site 300269013591 ParB-like nuclease domain; Region: ParB; smart00470 300269013592 ParB family; Region: ParB; pfam08775 300269013593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269013594 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013595 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 300269013596 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 300269013597 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 300269013598 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 300269013599 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 300269013600 putative active site [active] 300269013601 putative NTP binding site [chemical binding]; other site 300269013602 putative nucleic acid binding site [nucleotide binding]; other site 300269013603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013604 Integrase core domain; Region: rve; pfam00665 300269013605 Integrase core domain; Region: rve_3; cl15866 300269013606 transposase/IS protein; Provisional; Region: PRK09183 300269013607 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 300269013608 Walker A motif; other site 300269013609 ATP binding site [chemical binding]; other site 300269013610 Walker B motif; other site 300269013611 arginine finger; other site 300269013612 putative transposase OrfB; Reviewed; Region: PHA02517 300269013613 HTH-like domain; Region: HTH_21; pfam13276 300269013614 Integrase core domain; Region: rve; pfam00665 300269013615 Integrase core domain; Region: rve_3; pfam13683 300269013616 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013617 Putative transposase; Region: Y2_Tnp; pfam04986 300269013618 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269013619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269013620 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013621 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 300269013622 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013623 Integrase core domain; Region: rve_3; pfam13683 300269013624 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013625 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013626 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013627 Putative transposase; Region: Y2_Tnp; pfam04986 300269013628 Shigella flexneri OspC protein; Region: Shigella_OspC; pfam06128 300269013629 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 300269013630 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; cl17432 300269013631 membrane-bound complex binding site; other site 300269013632 hinge residues; other site 300269013633 Integrase core domain; Region: rve; pfam00665 300269013634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013635 Transposase; Region: HTH_Tnp_1; pfam01527 300269013636 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269013637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 300269013638 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 300269013639 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 300269013640 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013641 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 300269013642 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013643 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013644 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013646 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013647 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269013648 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269013649 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 300269013650 Leucine-rich repeats, bacterial type; Region: LRR_BAC; smart00364 300269013651 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269013652 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 300269013653 Transposase; Region: HTH_Tnp_1; cl17663 300269013654 putative transposase OrfB; Reviewed; Region: PHA02517 300269013655 HTH-like domain; Region: HTH_21; pfam13276 300269013656 Integrase core domain; Region: rve; pfam00665 300269013657 Integrase core domain; Region: rve_3; pfam13683 300269013658 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013659 Putative transposase; Region: Y2_Tnp; pfam04986 300269013660 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 300269013661 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013662 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 300269013663 Shigella flexneri OspC protein; Region: Shigella_OspC; pfam06128 300269013664 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 300269013665 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013666 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 300269013668 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013669 Putative transposase; Region: Y2_Tnp; pfam04986 300269013670 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013672 Transposase; Region: HTH_Tnp_1; pfam01527 300269013673 Shigella flexneri OspC protein; Region: Shigella_OspC; pfam06128 300269013674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013675 Transposase; Region: HTH_Tnp_1; pfam01527 300269013676 HTH-like domain; Region: HTH_21; pfam13276 300269013677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013678 Integrase core domain; Region: rve; pfam00665 300269013679 Integrase core domain; Region: rve_3; pfam13683 300269013680 HTH-like domain; Region: HTH_21; pfam13276 300269013681 Integrase core domain; Region: rve; pfam00665 300269013682 Integrase core domain; Region: rve_2; pfam13333 300269013683 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269013684 HTH-like domain; Region: HTH_21; pfam13276 300269013685 Integrase core domain; Region: rve; pfam00665 300269013686 Integrase core domain; Region: rve_3; pfam13683 300269013687 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269013688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013689 Transposase; Region: DEDD_Tnp_IS110; pfam01548 300269013690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013692 Helix-turn-helix domain; Region: HTH_38; pfam13936 300269013693 Integrase core domain; Region: rve; pfam00665 300269013694 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 300269013695 ParB-like nuclease domain; Region: ParB; smart00470 300269013696 ParB family; Region: ParB; pfam08775 300269013697 acyl carrier protein; Provisional; Region: acpP; PRK00982 300269013698 Salmonella invasion protein A; Region: SipA; pfam09052 300269013699 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 300269013700 pathogenicity island 1 effector protein SipC; Provisional; Region: PRK15373 300269013701 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 300269013702 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 300269013703 Tetratricopeptide repeat; Region: TPR_3; pfam07720 300269013704 Tetratricopeptide repeat; Region: TPR_3; pfam07720 300269013705 IpaB/EvcA family; Region: IpaB_EvcA; pfam03278 300269013706 chaperone protein SicP; Provisional; Region: PRK15329 300269013707 Enterobacterial virulence protein IpgD; Region: IpgD; pfam05925 300269013708 inositol phosphate phosphatase SopB; Provisional; Region: PRK15378 300269013709 type III secretion chaperone protein SigE; Provisional; Region: PRK15202 300269013710 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 300269013711 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 300269013712 N-acetyl-D-glucosamine binding site [chemical binding]; other site 300269013713 catalytic residue [active] 300269013714 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 300269013715 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 300269013716 Type III secretion needle MxiH like; Region: MxiH; cl09641 300269013717 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 300269013718 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 300269013719 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 300269013720 invasion protein OrgA; Provisional; Region: PRK15323 300269013721 invasion protein OrgB; Provisional; Region: PRK15322 300269013722 Pilot protein MxiM; Region: MxiM; pfam11441 300269013723 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 300269013724 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 300269013725 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 300269013726 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 300269013727 type III secretion system regulator InvE; Provisional; Region: PRK15338 300269013728 HrpJ-like domain; Region: HrpJ; pfam07201 300269013729 type III secretion system protein InvA; Provisional; Region: PRK15337 300269013730 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 300269013731 Invasion protein B family; Region: Invas_SpaK; pfam03519 300269013732 ATP synthase SpaL; Validated; Region: PRK08149 300269013733 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 300269013734 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 300269013735 Walker A motif; other site 300269013736 ATP binding site [chemical binding]; other site 300269013737 Walker B motif; other site 300269013738 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 300269013739 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 300269013740 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 300269013741 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 300269013742 type III secretion system protein SpaS; Validated; Region: PRK08156 300269013743 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 300269013744 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 300269013745 HTH-like domain; Region: HTH_21; pfam13276 300269013746 Integrase core domain; Region: rve; pfam00665 300269013747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013748 Transposase; Region: HTH_Tnp_1; pfam01527 300269013749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013750 Integrase core domain; Region: rve; pfam00665 300269013751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013752 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 300269013753 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 300269013754 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 300269013755 Walker A motif; other site 300269013756 ATP binding site [chemical binding]; other site 300269013757 Integrase core domain; Region: rve_3; pfam13683 300269013758 HTH-like domain; Region: HTH_21; pfam13276 300269013759 Transposase; Region: HTH_Tnp_1; cl17663 300269013760 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 300269013761 Transposase; Region: DDE_Tnp_ISL3; pfam01610 300269013762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 300269013763 Transposase; Region: HTH_Tnp_1; cl17663 300269013764 HTH-like domain; Region: HTH_21; pfam13276 300269013765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013766 Integrase core domain; Region: rve; pfam00665 300269013767 Integrase core domain; Region: rve_3; cl15866 300269013768 transposase/IS protein; Provisional; Region: PRK09183 300269013769 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 300269013770 Walker A motif; other site 300269013771 ATP binding site [chemical binding]; other site 300269013772 Walker B motif; other site 300269013773 arginine finger; other site 300269013774 Integrase core domain; Region: rve; pfam00665 300269013775 Integrase core domain; Region: rve_3; pfam13683 300269013776 Transposase; Region: DDE_Tnp_ISL3; pfam01610 300269013777 Putative transposase; Region: Y2_Tnp; pfam04986 300269013778 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 300269013779 nucleic acid binding site [nucleotide binding]; other site 300269013780 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 300269013781 NTP binding site [chemical binding]; other site 300269013782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013783 HTH-like domain; Region: HTH_21; pfam13276 300269013784 Transposase; Region: HTH_Tnp_1; cl17663 300269013785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013786 EspG protein; Region: EspG; pfam06872 300269013787 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 300269013788 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 300269013789 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 300269013790 Autotransporter beta-domain; Region: Autotransporter; pfam03797 300269013791 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 300269013792 Transposase; Region: HTH_Tnp_1; cl17663 300269013793 Integrase core domain; Region: rve; pfam00665 300269013794 Integrase core domain; Region: rve_3; pfam13683 300269013795 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 300269013796 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 300269013797 active site 300269013798 metal binding site [ion binding]; metal-binding site 300269013799 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 300269013800 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 300269013801 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 300269013802 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 300269013803 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 300269013804 putative active site [active] 300269013805 putative NTP binding site [chemical binding]; other site 300269013806 putative nucleic acid binding site [nucleotide binding]; other site 300269013807 Integrase core domain; Region: rve; pfam00665 300269013808 IS2 transposase TnpB; Reviewed; Region: PRK09409 300269013809 HTH-like domain; Region: HTH_21; pfam13276 300269013810 Integrase core domain; Region: rve; pfam00665 300269013811 Integrase core domain; Region: rve_3; pfam13683 300269013812 IS2 repressor TnpA; Reviewed; Region: PRK09413 300269013813 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013814 Transposase; Region: HTH_Tnp_1; cl17663 300269013815 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013816 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 300269013817 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 300269013818 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 300269013819 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013820 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269013821 transposase/IS protein; Provisional; Region: PRK09183 300269013822 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 300269013823 Walker A motif; other site 300269013824 ATP binding site [chemical binding]; other site 300269013825 Walker B motif; other site 300269013826 arginine finger; other site 300269013827 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 300269013828 Integrase core domain; Region: rve; pfam00665 300269013829 Integrase core domain; Region: rve_3; cl15866 300269013830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013831 Transposase; Region: HTH_Tnp_1; pfam01527 300269013832 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013833 Integrase core domain; Region: rve; pfam00665 300269013834 Integrase core domain; Region: rve_3; pfam13683 300269013835 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 300269013836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 300269013837 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269013838 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 300269013839 Leucine-rich repeats, bacterial type; Region: LRR_BAC; smart00364 300269013840 RelB antitoxin; Region: RelB; cl01171 300269013841 serine/threonine protein kinase; Provisional; Region: PRK14879 300269013842 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 300269013843 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 300269013844 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013845 putative transposase OrfB; Reviewed; Region: PHA02517 300269013846 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 300269013847 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 300269013848 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 300269013849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013850 Transposase; Region: HTH_Tnp_1; pfam01527 300269013851 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013852 Integrase core domain; Region: rve; pfam00665 300269013853 Integrase core domain; Region: rve_3; pfam13683 300269013854 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 300269013855 putative active site [active] 300269013856 putative metal binding site [ion binding]; other site 300269013857 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 300269013858 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 300269013859 Protein of unknown function (DUF535); Region: DUF535; pfam04393 300269013860 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 300269013861 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 300269013862 putative acyl-acceptor binding pocket; other site 300269013863 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013864 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013865 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013867 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013868 Transposase; Region: HTH_Tnp_1; pfam01527 300269013869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013870 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 300269013871 Antirestriction protein; Region: Antirestrict; pfam03230 300269013872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013873 Transposase; Region: HTH_Tnp_1; pfam01527 300269013874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013875 Integrase core domain; Region: rve; pfam00665 300269013876 Integrase core domain; Region: rve_3; pfam13683 300269013877 conjugal transfer protein TraD; Provisional; Region: PRK13700 300269013878 F sex factor protein N terminal; Region: TraD_N; pfam12615 300269013879 Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component...; Region: TrwB; cd01127 300269013880 multimer interface [polypeptide binding]; other site 300269013881 Walker A motif; other site 300269013882 ATP binding site [chemical binding]; other site 300269013883 Walker B motif; other site 300269013884 TrwC relaxase; Region: TrwC; pfam08751 300269013885 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 300269013886 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK14712 300269013887 AAA domain; Region: AAA_30; pfam13604 300269013888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013889 Transposase; Region: HTH_Tnp_1; pfam01527 300269013890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013891 Integrase core domain; Region: rve; pfam00665 300269013892 Integrase core domain; Region: rve_3; pfam13683 300269013893 DNA helicase TraI; Region: TraI; pfam07057 300269013894 conjugal transfer fertility inhibition protein FinO; Provisional; Region: PRK13754 300269013895 Fertility inhibition protein N terminal; Region: FinO_N; pfam12602 300269013896 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cd00236 300269013897 putative RNA binding sites [nucleotide binding]; other site 300269013898 Staphylococcal nuclease homologues; Region: SNc; smart00318 300269013899 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 300269013900 Catalytic site; other site 300269013901 Haemolysin expression modulating protein; Region: HHA; pfam05321 300269013902 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 300269013903 replication protein; Provisional; Region: PRK13702 300269013904 replication protein; Provisional; Region: PRK13750 300269013905 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 300269013906 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 300269013907 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013908 Putative transposase; Region: Y2_Tnp; pfam04986 300269013909 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 300269013910 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 300269013911 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 300269013912 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 300269013913 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013914 Putative transposase; Region: Y2_Tnp; pfam04986 300269013915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 300269013916 Integrase core domain; Region: rve; pfam00665 300269013917 Integrase core domain; Region: rve_3; pfam13683 300269013918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 300269013919 Transposase; Region: HTH_Tnp_1; pfam01527 300269013920 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013921 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013922 Putative transposase; Region: Y2_Tnp; pfam04986 300269013923 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013924 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 300269013925 Chain length determinant protein; Region: Wzz; pfam02706 300269013926 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 300269013927 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 300269013928 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 300269013929 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 300269013930 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 300269013931 NAD binding site [chemical binding]; other site 300269013932 substrate binding site [chemical binding]; other site 300269013933 homodimer interface [polypeptide binding]; other site 300269013934 active site 300269013935 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 300269013936 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 300269013937 O-Antigen ligase; Region: Wzy_C; pfam04932 300269013938 Homeodomain-like domain; Region: HTH_23; pfam13384 300269013939 Winged helix-turn helix; Region: HTH_29; pfam13551 300269013940 Homeodomain-like domain; Region: HTH_32; pfam13565 300269013941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 300269013942 DDE superfamily endonuclease; Region: DDE_3; pfam13358 300269013943 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 300269013944 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 300269013945 Ligand binding site; other site 300269013946 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 300269013947 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 300269013948 inhibitor-cofactor binding pocket; inhibition site 300269013949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 300269013950 catalytic residue [active] 300269013951 Bacterial sugar transferase; Region: Bac_transf; pfam02397 300269013952 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 300269013953 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 300269013954 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 300269013955 NAD(P) binding site [chemical binding]; other site 300269013956 homodimer interface [polypeptide binding]; other site 300269013957 substrate binding site [chemical binding]; other site 300269013958 active site 300269013959 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; cl00200 300269013960 amphipathic channel; other site 300269013961 Asn-Pro-Ala signature motifs; other site 300269013962 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 300269013963 DNA-binding interface [nucleotide binding]; DNA binding site 300269013964 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 300269013965 Putative transposase; Region: Y2_Tnp; pfam04986 300269013966 putative transposase OrfB; Reviewed; Region: PHA02517 300269013967 HTH-like domain; Region: HTH_21; pfam13276 300269013968 Integrase core domain; Region: rve; pfam00665 300269013969 Integrase core domain; Region: rve_3; pfam13683 300269013970 Omptin family; Region: Omptin; pfam01278 300269013971 tetracycline repressor protein TetR; Provisional; Region: PRK13756 300269013972 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 300269013973 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 300269013974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 300269013975 Major Facilitator Superfamily; Region: MFS_1; pfam07690 300269013976 putative substrate translocation pore; other site 300269013977 dihydropteroate synthase; Region: DHPS; TIGR01496 300269013978 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 300269013979 substrate binding pocket [chemical binding]; other site 300269013980 dimer interface [polypeptide binding]; other site 300269013981 inhibitor binding site; inhibition site 300269013982 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 300269013983 Phosphotransferase enzyme family; Region: APH; pfam01636 300269013984 active site 300269013985 ATP binding site [chemical binding]; other site 300269013986 antibiotic binding site [chemical binding]; other site 300269013987 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 300269013988 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 300269013989 Colicin pore forming domain; Region: Colicin; pfam01024 300269013990 Colicin E1 (microcin) immunity protein; Region: Microcin; pfam03526 300269013991 Lysis protein; Region: Lysis_col; pfam02402 300269013992 Rop protein; Region: Rop; pfam01815 300269013993 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 300269013994 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 300269013995 Replication protein; Region: Rep_1; pfam01446