-- dump date 20140619_081508 -- class Genbank::misc_feature -- table misc_feature_note -- id note 469008000001 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 469008000002 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 469008000003 putative catalytic residues [active] 469008000004 putative nucleotide binding site [chemical binding]; other site 469008000005 putative aspartate binding site [chemical binding]; other site 469008000006 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 469008000007 dimer interface [polypeptide binding]; other site 469008000008 putative threonine allosteric regulatory site; other site 469008000009 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 469008000010 putative threonine allosteric regulatory site; other site 469008000011 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 469008000012 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 469008000013 homoserine kinase; Region: thrB; TIGR00191 469008000014 Protein of unknown function; Region: YhfT; pfam10797 469008000015 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469008000016 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 469008000017 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 469008000018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008000019 catalytic residue [active] 469008000020 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 469008000021 hypothetical protein; Validated; Region: PRK02101 469008000022 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469008000023 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 469008000024 transaldolase-like protein; Provisional; Region: PTZ00411 469008000025 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 469008000026 active site 469008000027 dimer interface [polypeptide binding]; other site 469008000028 catalytic residue [active] 469008000029 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 469008000030 MPT binding site; other site 469008000031 trimer interface [polypeptide binding]; other site 469008000032 hypothetical protein; Provisional; Region: PRK10659 469008000033 hypothetical protein; Provisional; Region: PRK10236 469008000034 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 469008000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 469008000036 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 469008000037 hypothetical protein; Provisional; Region: PRK10154 469008000038 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 469008000039 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 469008000040 nucleotide binding site [chemical binding]; other site 469008000041 NEF interaction site [polypeptide binding]; other site 469008000042 SBD interface [polypeptide binding]; other site 469008000043 chaperone protein DnaJ; Provisional; Region: PRK10767 469008000044 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 469008000045 HSP70 interaction site [polypeptide binding]; other site 469008000046 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 469008000047 substrate binding site [polypeptide binding]; other site 469008000048 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 469008000049 Zn binding sites [ion binding]; other site 469008000050 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469008000051 dimer interface [polypeptide binding]; other site 469008000052 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008000053 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008000054 Hok/gef family; Region: HOK_GEF; pfam01848 469008000055 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 469008000056 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 469008000057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000058 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 469008000059 putative dimerization interface [polypeptide binding]; other site 469008000060 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008000061 PapC C-terminal domain; Region: PapC_C; pfam13953 469008000062 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 469008000063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000064 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000065 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000066 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000067 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 469008000068 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 469008000069 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 469008000070 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 469008000071 active site 469008000072 Riboflavin kinase; Region: Flavokinase; smart00904 469008000073 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 469008000074 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469008000075 HIGH motif; other site 469008000076 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469008000077 active site 469008000078 KMSKS motif; other site 469008000079 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 469008000080 tRNA binding surface [nucleotide binding]; other site 469008000081 anticodon binding site; other site 469008000082 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008000083 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 469008000084 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 469008000085 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008000086 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 469008000087 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 469008000088 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 469008000089 active site 469008000090 tetramer interface [polypeptide binding]; other site 469008000091 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 469008000092 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 469008000093 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 469008000094 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 469008000095 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 469008000096 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 469008000097 catalytic site [active] 469008000098 subunit interface [polypeptide binding]; other site 469008000099 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 469008000100 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008000101 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469008000102 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 469008000103 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008000104 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469008000105 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 469008000106 IMP binding site; other site 469008000107 dimer interface [polypeptide binding]; other site 469008000108 interdomain contacts; other site 469008000109 partial ornithine binding site; other site 469008000110 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 469008000111 carnitine operon protein CaiE; Provisional; Region: PRK13627 469008000112 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 469008000113 putative trimer interface [polypeptide binding]; other site 469008000114 putative metal binding site [ion binding]; other site 469008000115 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 469008000116 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 469008000117 substrate binding site [chemical binding]; other site 469008000118 oxyanion hole (OAH) forming residues; other site 469008000119 trimer interface [polypeptide binding]; other site 469008000120 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 469008000121 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 469008000122 acyl-activating enzyme (AAE) consensus motif; other site 469008000123 putative AMP binding site [chemical binding]; other site 469008000124 putative active site [active] 469008000125 putative CoA binding site [chemical binding]; other site 469008000126 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 469008000127 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 469008000128 active site 469008000129 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 469008000130 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 469008000131 Ligand binding site [chemical binding]; other site 469008000132 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008000133 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 469008000134 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 469008000135 Ligand binding site [chemical binding]; other site 469008000136 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008000137 putative oxidoreductase FixC; Provisional; Region: PRK10157 469008000138 ferredoxin-like protein FixX; Provisional; Region: PRK15449 469008000139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000140 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 469008000141 putative substrate translocation pore; other site 469008000142 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 469008000143 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 469008000144 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 469008000145 TrkA-N domain; Region: TrkA_N; pfam02254 469008000146 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 469008000147 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 469008000148 folate binding site [chemical binding]; other site 469008000149 NADP+ binding site [chemical binding]; other site 469008000150 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 469008000151 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 469008000152 active site 469008000153 metal binding site [ion binding]; metal-binding site 469008000154 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 469008000155 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 469008000156 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 469008000157 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 469008000158 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 469008000159 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 469008000160 SurA N-terminal domain; Region: SurA_N; pfam09312 469008000161 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469008000162 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469008000163 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 469008000164 OstA-like protein; Region: OstA; pfam03968 469008000165 Organic solvent tolerance protein; Region: OstA_C; pfam04453 469008000166 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 469008000167 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 469008000168 putative metal binding site [ion binding]; other site 469008000169 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 469008000170 HSP70 interaction site [polypeptide binding]; other site 469008000171 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469008000172 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008000173 active site 469008000174 ATP-dependent helicase HepA; Validated; Region: PRK04914 469008000175 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 469008000176 ATP binding site [chemical binding]; other site 469008000177 putative Mg++ binding site [ion binding]; other site 469008000178 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 469008000179 nucleotide binding region [chemical binding]; other site 469008000180 ATP-binding site [chemical binding]; other site 469008000181 DNA polymerase II; Reviewed; Region: PRK05762 469008000182 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 469008000183 active site 469008000184 catalytic site [active] 469008000185 substrate binding site [chemical binding]; other site 469008000186 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 469008000187 active site 469008000188 metal-binding site 469008000189 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008000190 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 469008000191 intersubunit interface [polypeptide binding]; other site 469008000192 active site 469008000193 Zn2+ binding site [ion binding]; other site 469008000194 L-arabinose isomerase; Provisional; Region: PRK02929 469008000195 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 469008000196 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008000197 trimer interface [polypeptide binding]; other site 469008000198 putative substrate binding site [chemical binding]; other site 469008000199 putative metal binding site [ion binding]; other site 469008000200 ribulokinase; Provisional; Region: PRK04123 469008000201 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 469008000202 N- and C-terminal domain interface [polypeptide binding]; other site 469008000203 active site 469008000204 MgATP binding site [chemical binding]; other site 469008000205 catalytic site [active] 469008000206 metal binding site [ion binding]; metal-binding site 469008000207 carbohydrate binding site [chemical binding]; other site 469008000208 homodimer interface [polypeptide binding]; other site 469008000209 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 469008000210 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008000211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000213 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008000214 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008000215 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 469008000216 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 469008000217 Walker A/P-loop; other site 469008000218 ATP binding site [chemical binding]; other site 469008000219 Q-loop/lid; other site 469008000220 ABC transporter signature motif; other site 469008000221 Walker B; other site 469008000222 D-loop; other site 469008000223 H-loop/switch region; other site 469008000224 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 469008000225 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 469008000226 dimer interface [polypeptide binding]; other site 469008000227 conserved gate region; other site 469008000228 putative PBP binding loops; other site 469008000229 ABC-ATPase subunit interface; other site 469008000230 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 469008000231 dimer interface [polypeptide binding]; other site 469008000232 conserved gate region; other site 469008000233 putative PBP binding loops; other site 469008000234 ABC-ATPase subunit interface; other site 469008000235 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 469008000236 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 469008000237 transcriptional regulator SgrR; Provisional; Region: PRK13626 469008000238 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 469008000239 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 469008000240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000241 sugar efflux transporter; Region: 2A0120; TIGR00899 469008000242 putative substrate translocation pore; other site 469008000243 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 469008000244 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 469008000245 substrate binding site [chemical binding]; other site 469008000246 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 469008000247 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 469008000248 substrate binding site [chemical binding]; other site 469008000249 ligand binding site [chemical binding]; other site 469008000250 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 469008000251 tartrate dehydrogenase; Region: TTC; TIGR02089 469008000252 2-isopropylmalate synthase; Validated; Region: PRK00915 469008000253 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 469008000254 active site 469008000255 catalytic residues [active] 469008000256 metal binding site [ion binding]; metal-binding site 469008000257 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 469008000258 leu operon leader peptide; Provisional; Region: PRK09925 469008000259 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 469008000260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000261 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 469008000262 putative substrate binding pocket [chemical binding]; other site 469008000263 putative dimerization interface [polypeptide binding]; other site 469008000264 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 469008000265 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008000266 PYR/PP interface [polypeptide binding]; other site 469008000267 dimer interface [polypeptide binding]; other site 469008000268 TPP binding site [chemical binding]; other site 469008000269 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008000270 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 469008000271 TPP-binding site [chemical binding]; other site 469008000272 dimer interface [polypeptide binding]; other site 469008000273 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 469008000274 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 469008000275 putative valine binding site [chemical binding]; other site 469008000276 dimer interface [polypeptide binding]; other site 469008000277 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 469008000278 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 469008000279 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008000280 DNA binding site [nucleotide binding] 469008000281 domain linker motif; other site 469008000282 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 469008000283 dimerization interface [polypeptide binding]; other site 469008000284 ligand binding site [chemical binding]; other site 469008000285 mraZ protein; Region: TIGR00242 469008000286 MraZ protein; Region: MraZ; pfam02381 469008000287 MraZ protein; Region: MraZ; pfam02381 469008000288 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 469008000289 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 469008000290 cell division protein FtsL; Provisional; Region: PRK10772 469008000291 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 469008000292 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469008000293 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469008000294 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 469008000295 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000296 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000297 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000298 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 469008000299 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000301 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000302 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 469008000303 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 469008000304 Mg++ binding site [ion binding]; other site 469008000305 putative catalytic motif [active] 469008000306 putative substrate binding site [chemical binding]; other site 469008000307 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 469008000308 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000309 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000310 cell division protein FtsW; Provisional; Region: PRK10774 469008000311 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 469008000312 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 469008000313 active site 469008000314 homodimer interface [polypeptide binding]; other site 469008000315 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 469008000316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000319 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 469008000320 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469008000321 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 469008000322 cell division protein FtsQ; Provisional; Region: PRK10775 469008000323 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 469008000324 Cell division protein FtsQ; Region: FtsQ; pfam03799 469008000325 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 469008000326 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008000327 Cell division protein FtsA; Region: FtsA; pfam14450 469008000328 cell division protein FtsZ; Validated; Region: PRK09330 469008000329 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 469008000330 nucleotide binding site [chemical binding]; other site 469008000331 SulA interaction site; other site 469008000332 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 469008000333 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 469008000334 SecA regulator SecM; Provisional; Region: PRK02943 469008000335 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 469008000336 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 469008000337 SEC-C motif; Region: SEC-C; pfam02810 469008000338 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 469008000339 active site 469008000340 8-oxo-dGMP binding site [chemical binding]; other site 469008000341 nudix motif; other site 469008000342 metal binding site [ion binding]; metal-binding site 469008000343 DNA gyrase inhibitor; Reviewed; Region: PRK00418 469008000344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 469008000345 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 469008000346 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 469008000347 CoA-binding site [chemical binding]; other site 469008000348 ATP-binding [chemical binding]; other site 469008000349 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 469008000350 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 469008000351 active site 469008000352 type IV pilin biogenesis protein; Provisional; Region: PRK10573 469008000353 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008000354 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008000355 hypothetical protein; Provisional; Region: PRK10436 469008000356 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 469008000357 Walker A motif; other site 469008000358 ATP binding site [chemical binding]; other site 469008000359 Walker B motif; other site 469008000360 putative major pilin subunit; Provisional; Region: PRK10574 469008000361 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008000362 Pilin (bacterial filament); Region: Pilin; pfam00114 469008000363 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 469008000364 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 469008000365 dimerization interface [polypeptide binding]; other site 469008000366 active site 469008000367 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469008000368 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 469008000369 amidase catalytic site [active] 469008000370 Zn binding residues [ion binding]; other site 469008000371 substrate binding site [chemical binding]; other site 469008000372 regulatory protein AmpE; Provisional; Region: PRK10987 469008000373 aromatic amino acid transporter; Provisional; Region: PRK10238 469008000374 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008000375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008000376 DNA-binding site [nucleotide binding]; DNA binding site 469008000377 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008000378 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 469008000379 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 469008000380 dimer interface [polypeptide binding]; other site 469008000381 TPP-binding site [chemical binding]; other site 469008000382 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 469008000383 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 469008000384 E3 interaction surface; other site 469008000385 lipoyl attachment site [posttranslational modification]; other site 469008000386 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 469008000387 E3 interaction surface; other site 469008000388 lipoyl attachment site [posttranslational modification]; other site 469008000389 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 469008000390 E3 interaction surface; other site 469008000391 lipoyl attachment site [posttranslational modification]; other site 469008000392 e3 binding domain; Region: E3_binding; pfam02817 469008000393 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 469008000394 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 469008000395 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008000396 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008000397 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008000398 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 469008000399 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 469008000400 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 469008000401 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 469008000402 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 469008000403 substrate binding site [chemical binding]; other site 469008000404 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 469008000405 substrate binding site [chemical binding]; other site 469008000406 ligand binding site [chemical binding]; other site 469008000407 hypothetical protein; Provisional; Region: PRK05248 469008000408 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 469008000409 spermidine synthase; Provisional; Region: PRK00811 469008000410 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 469008000411 S-adenosylmethionine binding site [chemical binding]; other site 469008000412 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 469008000413 multicopper oxidase; Provisional; Region: PRK10965 469008000414 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 469008000415 Multicopper oxidase; Region: Cu-oxidase; pfam00394 469008000416 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 469008000417 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 469008000418 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 469008000419 Trp docking motif [polypeptide binding]; other site 469008000420 putative active site [active] 469008000421 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008000422 active site 469008000423 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 469008000424 active site clefts [active] 469008000425 zinc binding site [ion binding]; other site 469008000426 dimer interface [polypeptide binding]; other site 469008000427 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 469008000428 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008000429 Walker A/P-loop; other site 469008000430 ATP binding site [chemical binding]; other site 469008000431 Q-loop/lid; other site 469008000432 ABC transporter signature motif; other site 469008000433 Walker B; other site 469008000434 D-loop; other site 469008000435 H-loop/switch region; other site 469008000436 inner membrane transport permease; Provisional; Region: PRK15066 469008000437 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008000438 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 469008000439 active pocket/dimerization site; other site 469008000440 active site 469008000441 phosphorylation site [posttranslational modification] 469008000442 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 469008000443 putative active site [active] 469008000444 putative metal binding site [ion binding]; other site 469008000445 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 469008000446 tetramerization interface [polypeptide binding]; other site 469008000447 active site 469008000448 Uncharacterized conserved protein [Function unknown]; Region: COG5464 469008000449 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008000450 pantoate--beta-alanine ligase; Region: panC; TIGR00018 469008000451 Pantoate-beta-alanine ligase; Region: PanC; cd00560 469008000452 active site 469008000453 ATP-binding site [chemical binding]; other site 469008000454 pantoate-binding site; other site 469008000455 HXXH motif; other site 469008000456 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 469008000457 oligomerization interface [polypeptide binding]; other site 469008000458 active site 469008000459 metal binding site [ion binding]; metal-binding site 469008000460 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 469008000461 putative fimbrial protein StaF; Provisional; Region: PRK15262 469008000462 putative fimbrial protein StaE; Provisional; Region: PRK15263 469008000463 Fimbrial protein; Region: Fimbrial; cl01416 469008000464 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 469008000465 PapC N-terminal domain; Region: PapC_N; pfam13954 469008000466 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008000467 PapC C-terminal domain; Region: PapC_C; pfam13953 469008000468 putative chaperone protein EcpD; Provisional; Region: PRK09926 469008000469 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008000470 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008000471 Fimbrial protein; Region: Fimbrial; cl01416 469008000472 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 469008000473 catalytic center binding site [active] 469008000474 ATP binding site [chemical binding]; other site 469008000475 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 469008000476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469008000477 active site 469008000478 NTP binding site [chemical binding]; other site 469008000479 metal binding triad [ion binding]; metal-binding site 469008000480 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469008000481 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 469008000482 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 469008000483 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 469008000484 active site 469008000485 nucleotide binding site [chemical binding]; other site 469008000486 HIGH motif; other site 469008000487 KMSKS motif; other site 469008000488 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 469008000489 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 469008000490 2'-5' RNA ligase; Provisional; Region: PRK15124 469008000491 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 469008000492 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 469008000493 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 469008000494 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 469008000495 ATP binding site [chemical binding]; other site 469008000496 putative Mg++ binding site [ion binding]; other site 469008000497 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 469008000498 nucleotide binding region [chemical binding]; other site 469008000499 ATP-binding site [chemical binding]; other site 469008000500 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 469008000501 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 469008000502 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 469008000503 Transglycosylase; Region: Transgly; pfam00912 469008000504 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008000505 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 469008000506 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 469008000507 N-terminal plug; other site 469008000508 ligand-binding site [chemical binding]; other site 469008000509 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 469008000510 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008000511 Walker A/P-loop; other site 469008000512 ATP binding site [chemical binding]; other site 469008000513 Q-loop/lid; other site 469008000514 ABC transporter signature motif; other site 469008000515 Walker B; other site 469008000516 D-loop; other site 469008000517 H-loop/switch region; other site 469008000518 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 469008000519 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469008000520 siderophore binding site; other site 469008000521 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008000522 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 469008000523 ABC-ATPase subunit interface; other site 469008000524 dimer interface [polypeptide binding]; other site 469008000525 putative PBP binding regions; other site 469008000526 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 469008000527 ABC-ATPase subunit interface; other site 469008000528 dimer interface [polypeptide binding]; other site 469008000529 putative PBP binding regions; other site 469008000530 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 469008000531 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 469008000532 inhibitor-cofactor binding pocket; inhibition site 469008000533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008000534 catalytic residue [active] 469008000535 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008000536 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 469008000537 Cl- selectivity filter; other site 469008000538 Cl- binding residues [ion binding]; other site 469008000539 pore gating glutamate residue; other site 469008000540 dimer interface [polypeptide binding]; other site 469008000541 H+/Cl- coupling transport residue; other site 469008000542 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 469008000543 hypothetical protein; Provisional; Region: PRK10578 469008000544 UPF0126 domain; Region: UPF0126; pfam03458 469008000545 UPF0126 domain; Region: UPF0126; pfam03458 469008000546 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 469008000547 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 469008000548 cobalamin binding residues [chemical binding]; other site 469008000549 putative BtuC binding residues; other site 469008000550 dimer interface [polypeptide binding]; other site 469008000551 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 469008000552 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 469008000553 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 469008000554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008000555 Zn2+ binding site [ion binding]; other site 469008000556 Mg2+ binding site [ion binding]; other site 469008000557 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 469008000558 serine endoprotease; Provisional; Region: PRK10942 469008000559 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008000560 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 469008000561 protein binding site [polypeptide binding]; other site 469008000562 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 469008000563 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 469008000564 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 469008000565 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 469008000566 hypothetical protein; Provisional; Region: PRK13677 469008000567 phosphodiesterase YaeI; Provisional; Region: PRK11340 469008000568 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 469008000569 putative active site [active] 469008000570 putative metal binding site [ion binding]; other site 469008000571 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 469008000572 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 469008000573 trimer interface [polypeptide binding]; other site 469008000574 active site 469008000575 substrate binding site [chemical binding]; other site 469008000576 CoA binding site [chemical binding]; other site 469008000577 PII uridylyl-transferase; Provisional; Region: PRK05007 469008000578 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008000579 metal binding triad; other site 469008000580 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008000581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008000582 Zn2+ binding site [ion binding]; other site 469008000583 Mg2+ binding site [ion binding]; other site 469008000584 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 469008000585 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 469008000586 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 469008000587 active site 469008000588 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 469008000589 rRNA interaction site [nucleotide binding]; other site 469008000590 S8 interaction site; other site 469008000591 putative laminin-1 binding site; other site 469008000592 elongation factor Ts; Provisional; Region: tsf; PRK09377 469008000593 UBA/TS-N domain; Region: UBA; pfam00627 469008000594 Elongation factor TS; Region: EF_TS; pfam00889 469008000595 Elongation factor TS; Region: EF_TS; pfam00889 469008000596 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 469008000597 putative nucleotide binding site [chemical binding]; other site 469008000598 uridine monophosphate binding site [chemical binding]; other site 469008000599 homohexameric interface [polypeptide binding]; other site 469008000600 ribosome recycling factor; Reviewed; Region: frr; PRK00083 469008000601 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 469008000602 hinge region; other site 469008000603 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 469008000604 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 469008000605 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 469008000606 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 469008000607 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 469008000608 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 469008000609 catalytic residue [active] 469008000610 putative FPP diphosphate binding site; other site 469008000611 putative FPP binding hydrophobic cleft; other site 469008000612 dimer interface [polypeptide binding]; other site 469008000613 putative IPP diphosphate binding site; other site 469008000614 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 469008000615 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469008000616 zinc metallopeptidase RseP; Provisional; Region: PRK10779 469008000617 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 469008000618 active site 469008000619 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 469008000620 protein binding site [polypeptide binding]; other site 469008000621 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 469008000622 putative substrate binding region [chemical binding]; other site 469008000623 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 469008000624 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000625 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000626 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000627 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000628 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000629 Surface antigen; Region: Bac_surface_Ag; pfam01103 469008000630 periplasmic chaperone; Provisional; Region: PRK10780 469008000631 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 469008000632 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 469008000633 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 469008000634 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 469008000635 trimer interface [polypeptide binding]; other site 469008000636 active site 469008000637 UDP-GlcNAc binding site [chemical binding]; other site 469008000638 lipid binding site [chemical binding]; lipid-binding site 469008000639 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 469008000640 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 469008000641 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 469008000642 active site 469008000643 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 469008000644 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 469008000645 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 469008000646 RNA/DNA hybrid binding site [nucleotide binding]; other site 469008000647 active site 469008000648 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 469008000649 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 469008000650 putative active site [active] 469008000651 putative PHP Thumb interface [polypeptide binding]; other site 469008000652 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 469008000653 generic binding surface II; other site 469008000654 generic binding surface I; other site 469008000655 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 469008000656 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 469008000657 lysine decarboxylase LdcC; Provisional; Region: PRK15399 469008000658 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008000659 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 469008000660 homodimer interface [polypeptide binding]; other site 469008000661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008000662 catalytic residue [active] 469008000663 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008000664 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 469008000665 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008000666 putative metal binding site [ion binding]; other site 469008000667 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 469008000668 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 469008000669 Ligand Binding Site [chemical binding]; other site 469008000670 TilS substrate binding domain; Region: TilS; pfam09179 469008000671 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 469008000672 Rho-binding antiterminator; Provisional; Region: PRK11625 469008000673 hypothetical protein; Provisional; Region: PRK04964 469008000674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 469008000675 hypothetical protein; Provisional; Region: PRK09256 469008000676 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 469008000677 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 469008000678 NlpE N-terminal domain; Region: NlpE; pfam04170 469008000679 hypothetical protein; Provisional; Region: PRK11479 469008000680 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 469008000681 prolyl-tRNA synthetase; Provisional; Region: PRK09194 469008000682 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 469008000683 dimer interface [polypeptide binding]; other site 469008000684 motif 1; other site 469008000685 active site 469008000686 motif 2; other site 469008000687 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 469008000688 putative deacylase active site [active] 469008000689 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 469008000690 active site 469008000691 motif 3; other site 469008000692 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 469008000693 anticodon binding site; other site 469008000694 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 469008000695 homodimer interaction site [polypeptide binding]; other site 469008000696 cofactor binding site; other site 469008000697 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 469008000698 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 469008000699 lipoprotein, YaeC family; Region: TIGR00363 469008000700 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 469008000701 dimer interface [polypeptide binding]; other site 469008000702 conserved gate region; other site 469008000703 ABC-ATPase subunit interface; other site 469008000704 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 469008000705 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 469008000706 Walker A/P-loop; other site 469008000707 ATP binding site [chemical binding]; other site 469008000708 Q-loop/lid; other site 469008000709 ABC transporter signature motif; other site 469008000710 Walker B; other site 469008000711 D-loop; other site 469008000712 H-loop/switch region; other site 469008000713 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 469008000714 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 469008000715 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 469008000716 active site 469008000717 motif I; other site 469008000718 motif II; other site 469008000719 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 469008000720 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008000721 active site 469008000722 catalytic tetrad [active] 469008000723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008000724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000725 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 469008000726 putative effector binding pocket; other site 469008000727 dimerization interface [polypeptide binding]; other site 469008000728 hypothetical protein; Provisional; Region: PRK05421 469008000729 putative catalytic site [active] 469008000730 putative metal binding site [ion binding]; other site 469008000731 putative phosphate binding site [ion binding]; other site 469008000732 putative catalytic site [active] 469008000733 putative phosphate binding site [ion binding]; other site 469008000734 putative metal binding site [ion binding]; other site 469008000735 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008000736 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 469008000737 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 469008000738 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 469008000739 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008000740 catalytic residue [active] 469008000741 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008000742 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008000743 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 469008000744 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 469008000745 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 469008000746 RNA/DNA hybrid binding site [nucleotide binding]; other site 469008000747 active site 469008000748 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 469008000749 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 469008000750 active site 469008000751 catalytic site [active] 469008000752 substrate binding site [chemical binding]; other site 469008000753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000754 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000755 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000756 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000757 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008000758 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008000759 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008000760 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008000761 C-N hydrolase family amidase; Provisional; Region: PRK10438 469008000762 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 469008000763 putative active site [active] 469008000764 catalytic triad [active] 469008000765 dimer interface [polypeptide binding]; other site 469008000766 multimer interface [polypeptide binding]; other site 469008000767 C-lysozyme inhibitor; Provisional; Region: PRK09993 469008000768 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 469008000769 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 469008000770 active site 469008000771 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 469008000772 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 469008000773 dimer interface [polypeptide binding]; other site 469008000774 active site 469008000775 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 469008000776 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 469008000777 putative active site [active] 469008000778 putative dimer interface [polypeptide binding]; other site 469008000779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 469008000780 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008000781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 469008000782 RelB antitoxin; Region: RelB; cl01171 469008000783 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008000784 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008000785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 469008000786 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 469008000787 active site 469008000788 DNA polymerase IV; Validated; Region: PRK02406 469008000789 DNA binding site [nucleotide binding] 469008000790 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 469008000791 putative toxin YafO; Provisional; Region: PRK09885 469008000792 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008000793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008000794 Coenzyme A binding pocket [chemical binding]; other site 469008000795 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 469008000796 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 469008000797 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 469008000798 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 469008000799 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 469008000800 metal binding site [ion binding]; metal-binding site 469008000801 dimer interface [polypeptide binding]; other site 469008000802 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008000803 active site 469008000804 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 469008000805 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 469008000806 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000807 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000808 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000809 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000810 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008000811 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 469008000812 trimer interface [polypeptide binding]; other site 469008000813 eyelet of channel; other site 469008000814 gamma-glutamyl kinase; Provisional; Region: PRK05429 469008000815 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 469008000816 nucleotide binding site [chemical binding]; other site 469008000817 homotetrameric interface [polypeptide binding]; other site 469008000818 putative phosphate binding site [ion binding]; other site 469008000819 putative allosteric binding site; other site 469008000820 PUA domain; Region: PUA; pfam01472 469008000821 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 469008000822 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 469008000823 putative catalytic cysteine [active] 469008000824 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 469008000825 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 469008000826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008000827 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 469008000828 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 469008000829 XdhC Rossmann domain; Region: XdhC_C; pfam13478 469008000830 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 469008000831 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008000832 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008000833 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 469008000834 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 469008000835 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 469008000836 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 469008000837 catalytic loop [active] 469008000838 iron binding site [ion binding]; other site 469008000839 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008000840 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 469008000841 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 469008000842 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008000843 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 469008000844 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008000845 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 469008000846 DNA binding residues [nucleotide binding] 469008000847 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 469008000848 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008000849 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 469008000850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000851 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 469008000852 Predicted membrane protein [Function unknown]; Region: COG3059 469008000853 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008000854 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 469008000855 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008000856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008000857 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008000858 Cupin; Region: Cupin_6; pfam12852 469008000859 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008000860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000861 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469008000862 Cysteine-rich domain; Region: CCG; pfam02754 469008000863 Cysteine-rich domain; Region: CCG; pfam02754 469008000864 iron-sulfur cluster-binding protein; Region: TIGR00273 469008000865 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 469008000866 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 469008000867 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 469008000868 Uncharacterized conserved protein [Function unknown]; Region: COG1556 469008000869 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008000870 choline dehydrogenase; Validated; Region: PRK02106 469008000871 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 469008000872 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 469008000873 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 469008000874 tetrameric interface [polypeptide binding]; other site 469008000875 NAD binding site [chemical binding]; other site 469008000876 catalytic residues [active] 469008000877 transcriptional regulator BetI; Validated; Region: PRK00767 469008000878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008000879 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 469008000880 choline transport protein BetT; Provisional; Region: PRK09928 469008000881 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 469008000882 DNA binding residues [nucleotide binding] 469008000883 dimerization interface [polypeptide binding]; other site 469008000884 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 469008000885 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 469008000886 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000887 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 469008000888 dimerization interface [polypeptide binding]; other site 469008000889 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 469008000890 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469008000891 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 469008000892 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469008000893 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008000894 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 469008000895 CoA binding domain; Region: CoA_binding; pfam02629 469008000896 CoA-ligase; Region: Ligase_CoA; pfam00549 469008000897 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008000898 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 469008000899 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 469008000900 putative substrate binding site [chemical binding]; other site 469008000901 nucleotide binding site [chemical binding]; other site 469008000902 nucleotide binding site [chemical binding]; other site 469008000903 homodimer interface [polypeptide binding]; other site 469008000904 putative deaminase; Validated; Region: PRK06846 469008000905 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 469008000906 active site 469008000907 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 469008000908 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 469008000909 putative NAD(P) binding site [chemical binding]; other site 469008000910 putative substrate binding site [chemical binding]; other site 469008000911 catalytic Zn binding site [ion binding]; other site 469008000912 structural Zn binding site [ion binding]; other site 469008000913 dimer interface [polypeptide binding]; other site 469008000914 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 469008000915 hypothetical protein; Provisional; Region: PRK09929 469008000916 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 469008000917 Propionate catabolism activator; Region: PrpR_N; pfam06506 469008000918 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 469008000919 Walker A motif; other site 469008000920 ATP binding site [chemical binding]; other site 469008000921 Walker B motif; other site 469008000922 arginine finger; other site 469008000923 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008000924 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 469008000925 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 469008000926 tetramer interface [polypeptide binding]; other site 469008000927 active site 469008000928 Mg2+/Mn2+ binding site [ion binding]; other site 469008000929 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 469008000930 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 469008000931 dimer interface [polypeptide binding]; other site 469008000932 active site 469008000933 citrylCoA binding site [chemical binding]; other site 469008000934 oxalacetate/citrate binding site [chemical binding]; other site 469008000935 coenzyme A binding site [chemical binding]; other site 469008000936 catalytic triad [active] 469008000937 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 469008000938 2-methylcitrate dehydratase; Region: prpD; TIGR02330 469008000939 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 469008000940 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 469008000941 acyl-activating enzyme (AAE) consensus motif; other site 469008000942 putative AMP binding site [chemical binding]; other site 469008000943 putative active site [active] 469008000944 putative CoA binding site [chemical binding]; other site 469008000945 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 469008000946 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 469008000947 Na binding site [ion binding]; other site 469008000948 putative substrate binding site [chemical binding]; other site 469008000949 cytosine deaminase; Provisional; Region: PRK09230 469008000950 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 469008000951 active site 469008000952 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 469008000953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000954 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 469008000955 dimerization interface [polypeptide binding]; other site 469008000956 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 469008000957 active site clefts [active] 469008000958 zinc binding site [ion binding]; other site 469008000959 dimer interface [polypeptide binding]; other site 469008000960 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 469008000961 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 469008000962 oligomer interface [polypeptide binding]; other site 469008000963 active site 469008000964 putative cyanate transporter; Provisional; Region: cynX; PRK09705 469008000965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000966 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 469008000967 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 469008000968 active site 469008000969 substrate binding site [chemical binding]; other site 469008000970 trimer interface [polypeptide binding]; other site 469008000971 CoA binding site [chemical binding]; other site 469008000972 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 469008000973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000974 putative substrate translocation pore; other site 469008000975 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 469008000976 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008000977 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008000978 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008000979 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 469008000980 lac repressor; Reviewed; Region: lacI; PRK09526 469008000981 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008000982 DNA binding site [nucleotide binding] 469008000983 domain linker motif; other site 469008000984 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 469008000985 ligand binding site [chemical binding]; other site 469008000986 dimerization interface (open form) [polypeptide binding]; other site 469008000987 dimerization interface (closed form) [polypeptide binding]; other site 469008000988 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 469008000989 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008000990 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008000991 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 469008000992 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008000993 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 469008000994 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008000995 putative active site [active] 469008000996 Fe(II) binding site [ion binding]; other site 469008000997 putative dimer interface [polypeptide binding]; other site 469008000998 putative tetramer interface [polypeptide binding]; other site 469008000999 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 469008001000 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 469008001001 nucleophilic elbow; other site 469008001002 catalytic triad; other site 469008001003 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 469008001004 acetaldehyde dehydrogenase; Validated; Region: PRK08300 469008001005 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008001006 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 469008001007 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 469008001008 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 469008001009 active site 469008001010 catalytic residues [active] 469008001011 metal binding site [ion binding]; metal-binding site 469008001012 DmpG-like communication domain; Region: DmpG_comm; pfam07836 469008001013 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 469008001014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 469008001017 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 469008001018 S-formylglutathione hydrolase; Region: PLN02442 469008001019 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 469008001020 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 469008001021 substrate binding site [chemical binding]; other site 469008001022 catalytic Zn binding site [ion binding]; other site 469008001023 NAD binding site [chemical binding]; other site 469008001024 structural Zn binding site [ion binding]; other site 469008001025 dimer interface [polypeptide binding]; other site 469008001026 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 469008001027 putative metal binding site [ion binding]; other site 469008001028 putative homodimer interface [polypeptide binding]; other site 469008001029 putative homotetramer interface [polypeptide binding]; other site 469008001030 putative homodimer-homodimer interface [polypeptide binding]; other site 469008001031 putative allosteric switch controlling residues; other site 469008001032 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001034 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001035 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001036 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 469008001037 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 469008001038 substrate binding pocket [chemical binding]; other site 469008001039 membrane-bound complex binding site; other site 469008001040 hinge residues; other site 469008001041 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 469008001042 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469008001043 Walker A/P-loop; other site 469008001044 ATP binding site [chemical binding]; other site 469008001045 Q-loop/lid; other site 469008001046 ABC transporter signature motif; other site 469008001047 Walker B; other site 469008001048 D-loop; other site 469008001049 H-loop/switch region; other site 469008001050 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008001051 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 469008001052 dimer interface [polypeptide binding]; other site 469008001053 conserved gate region; other site 469008001054 putative PBP binding loops; other site 469008001055 ABC-ATPase subunit interface; other site 469008001056 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 469008001057 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 469008001058 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 469008001059 dimer interface [polypeptide binding]; other site 469008001060 active site 469008001061 Schiff base residues; other site 469008001062 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 469008001063 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008001064 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008001065 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 469008001066 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 469008001067 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 469008001068 microcin B17 transporter; Reviewed; Region: PRK11098 469008001069 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 469008001070 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 469008001071 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 469008001072 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 469008001073 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469008001074 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 469008001075 anti-RssB factor; Provisional; Region: PRK10244 469008001076 alkaline phosphatase; Provisional; Region: PRK10518 469008001077 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 469008001078 dimer interface [polypeptide binding]; other site 469008001079 active site 469008001080 hypothetical protein; Provisional; Region: PRK11505 469008001081 psiF repeat; Region: PsiF_repeat; pfam07769 469008001082 psiF repeat; Region: PsiF_repeat; pfam07769 469008001083 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 469008001084 MASE2 domain; Region: MASE2; pfam05230 469008001085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008001086 metal binding site [ion binding]; metal-binding site 469008001087 active site 469008001088 I-site; other site 469008001089 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 469008001090 pyrroline-5-carboxylate reductase; Region: PLN02688 469008001091 hypothetical protein; Validated; Region: PRK00124 469008001092 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 469008001093 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 469008001094 ADP binding site [chemical binding]; other site 469008001095 magnesium binding site [ion binding]; other site 469008001096 putative shikimate binding site; other site 469008001097 hypothetical protein; Provisional; Region: PRK10380 469008001098 hypothetical protein; Provisional; Region: PRK10481 469008001099 hypothetical protein; Provisional; Region: PRK10579 469008001100 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 469008001101 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001103 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001104 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001105 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 469008001106 fructokinase; Reviewed; Region: PRK09557 469008001107 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008001108 nucleotide binding site [chemical binding]; other site 469008001109 MFS transport protein AraJ; Provisional; Region: PRK10091 469008001110 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001111 putative substrate translocation pore; other site 469008001112 exonuclease subunit SbcC; Provisional; Region: PRK10246 469008001113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001114 Walker A/P-loop; other site 469008001115 ATP binding site [chemical binding]; other site 469008001116 Q-loop/lid; other site 469008001117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001118 ABC transporter signature motif; other site 469008001119 Walker B; other site 469008001120 D-loop; other site 469008001121 H-loop/switch region; other site 469008001122 exonuclease subunit SbcD; Provisional; Region: PRK10966 469008001123 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 469008001124 active site 469008001125 metal binding site [ion binding]; metal-binding site 469008001126 DNA binding site [nucleotide binding] 469008001127 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 469008001128 transcriptional regulator PhoB; Provisional; Region: PRK10161 469008001129 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 469008001130 active site 469008001131 phosphorylation site [posttranslational modification] 469008001132 intermolecular recognition site; other site 469008001133 dimerization interface [polypeptide binding]; other site 469008001134 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 469008001135 DNA binding site [nucleotide binding] 469008001136 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 469008001137 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 469008001138 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 469008001139 putative active site [active] 469008001140 heme pocket [chemical binding]; other site 469008001141 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 469008001142 dimer interface [polypeptide binding]; other site 469008001143 phosphorylation site [posttranslational modification] 469008001144 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 469008001145 ATP binding site [chemical binding]; other site 469008001146 Mg2+ binding site [ion binding]; other site 469008001147 G-X-G motif; other site 469008001148 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 469008001149 putative proline-specific permease; Provisional; Region: proY; PRK10580 469008001150 Spore germination protein; Region: Spore_permease; cl17796 469008001151 maltodextrin glucosidase; Provisional; Region: PRK10785 469008001152 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 469008001153 homodimer interface [polypeptide binding]; other site 469008001154 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 469008001155 active site 469008001156 homodimer interface [polypeptide binding]; other site 469008001157 catalytic site [active] 469008001158 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 469008001159 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 469008001160 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 469008001161 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 469008001162 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 469008001163 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 469008001164 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 469008001165 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 469008001166 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469008001167 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 469008001168 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 469008001169 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469008001170 Protein export membrane protein; Region: SecD_SecF; pfam02355 469008001171 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 469008001172 active site 469008001173 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 469008001174 hypothetical protein; Provisional; Region: PRK11530 469008001175 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 469008001176 ATP cone domain; Region: ATP-cone; pfam03477 469008001177 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 469008001178 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 469008001179 catalytic motif [active] 469008001180 Zn binding site [ion binding]; other site 469008001181 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 469008001182 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 469008001183 homopentamer interface [polypeptide binding]; other site 469008001184 active site 469008001185 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 469008001186 putative RNA binding site [nucleotide binding]; other site 469008001187 thiamine monophosphate kinase; Provisional; Region: PRK05731 469008001188 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 469008001189 ATP binding site [chemical binding]; other site 469008001190 dimerization interface [polypeptide binding]; other site 469008001191 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 469008001192 tetramer interfaces [polypeptide binding]; other site 469008001193 binuclear metal-binding site [ion binding]; other site 469008001194 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 469008001195 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008001196 active site 469008001197 catalytic tetrad [active] 469008001198 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 469008001199 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 469008001200 TPP-binding site; other site 469008001201 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 469008001202 PYR/PP interface [polypeptide binding]; other site 469008001203 dimer interface [polypeptide binding]; other site 469008001204 TPP binding site [chemical binding]; other site 469008001205 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008001206 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469008001207 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469008001208 substrate binding pocket [chemical binding]; other site 469008001209 chain length determination region; other site 469008001210 substrate-Mg2+ binding site; other site 469008001211 catalytic residues [active] 469008001212 aspartate-rich region 1; other site 469008001213 active site lid residues [active] 469008001214 aspartate-rich region 2; other site 469008001215 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 469008001216 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 469008001217 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 469008001218 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 469008001219 Ligand Binding Site [chemical binding]; other site 469008001220 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 469008001221 active site residue [active] 469008001222 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 469008001223 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469008001224 conserved cys residue [active] 469008001225 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 469008001226 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 469008001227 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 469008001228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 469008001229 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 469008001230 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001231 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008001232 putative substrate translocation pore; other site 469008001233 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008001234 Sel1 repeat; Region: Sel1; pfam08238 469008001235 Sel1-like repeats; Region: SEL1; smart00671 469008001236 Sel1-like repeats; Region: SEL1; smart00671 469008001237 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 469008001238 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 469008001239 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 469008001240 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008001241 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 469008001242 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 469008001243 Subunit I/III interface [polypeptide binding]; other site 469008001244 Subunit III/IV interface [polypeptide binding]; other site 469008001245 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 469008001246 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 469008001247 D-pathway; other site 469008001248 Putative ubiquinol binding site [chemical binding]; other site 469008001249 Low-spin heme (heme b) binding site [chemical binding]; other site 469008001250 Putative water exit pathway; other site 469008001251 Binuclear center (heme o3/CuB) [ion binding]; other site 469008001252 K-pathway; other site 469008001253 Putative proton exit pathway; other site 469008001254 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 469008001255 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 469008001256 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 469008001257 muropeptide transporter; Reviewed; Region: ampG; PRK11902 469008001258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001259 putative substrate translocation pore; other site 469008001260 hypothetical protein; Provisional; Region: PRK11627 469008001261 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 469008001262 transcriptional regulator BolA; Provisional; Region: PRK11628 469008001263 trigger factor; Provisional; Region: tig; PRK01490 469008001264 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008001265 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 469008001266 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 469008001267 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 469008001268 oligomer interface [polypeptide binding]; other site 469008001269 active site residues [active] 469008001270 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 469008001271 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 469008001272 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 469008001273 Walker A motif; other site 469008001274 ATP binding site [chemical binding]; other site 469008001275 Walker B motif; other site 469008001276 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469008001277 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008001278 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008001279 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 469008001280 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469008001281 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469008001282 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 469008001283 Walker A motif; other site 469008001284 ATP binding site [chemical binding]; other site 469008001285 Walker B motif; other site 469008001286 arginine finger; other site 469008001287 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469008001288 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 469008001289 IHF dimer interface [polypeptide binding]; other site 469008001290 IHF - DNA interface [nucleotide binding]; other site 469008001291 periplasmic folding chaperone; Provisional; Region: PRK10788 469008001292 SurA N-terminal domain; Region: SurA_N_3; cl07813 469008001293 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 469008001294 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 469008001295 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 469008001296 active site 469008001297 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 469008001298 Ligand Binding Site [chemical binding]; other site 469008001299 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 469008001300 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 469008001301 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 469008001302 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 469008001303 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 469008001304 active site 469008001305 motif I; other site 469008001306 motif II; other site 469008001307 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 469008001308 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 469008001309 putative DNA binding site [nucleotide binding]; other site 469008001310 putative Zn2+ binding site [ion binding]; other site 469008001311 AsnC family; Region: AsnC_trans_reg; pfam01037 469008001312 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008001313 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 469008001314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001315 Walker A/P-loop; other site 469008001316 ATP binding site [chemical binding]; other site 469008001317 Q-loop/lid; other site 469008001318 ABC transporter signature motif; other site 469008001319 Walker B; other site 469008001320 D-loop; other site 469008001321 H-loop/switch region; other site 469008001322 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 469008001323 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008001324 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 469008001325 Walker A/P-loop; other site 469008001326 ATP binding site [chemical binding]; other site 469008001327 Q-loop/lid; other site 469008001328 ABC transporter signature motif; other site 469008001329 Walker B; other site 469008001330 D-loop; other site 469008001331 H-loop/switch region; other site 469008001332 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 469008001333 Nitrogen regulatory protein P-II; Region: P-II; smart00938 469008001334 ammonium transporter; Provisional; Region: PRK10666 469008001335 acyl-CoA thioesterase II; Provisional; Region: PRK10526 469008001336 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 469008001337 active site 469008001338 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 469008001339 catalytic triad [active] 469008001340 dimer interface [polypeptide binding]; other site 469008001341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 469008001342 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 469008001343 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 469008001344 DNA binding site [nucleotide binding] 469008001345 active site 469008001346 Uncharacterized conserved protein [Function unknown]; Region: COG5507 469008001347 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 469008001348 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008001349 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 469008001350 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 469008001351 maltose O-acetyltransferase; Provisional; Region: PRK10092 469008001352 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 469008001353 active site 469008001354 substrate binding site [chemical binding]; other site 469008001355 trimer interface [polypeptide binding]; other site 469008001356 CoA binding site [chemical binding]; other site 469008001357 gene expression modulator; Provisional; Region: PRK10945 469008001358 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 469008001359 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 469008001360 Protein export membrane protein; Region: SecD_SecF; cl14618 469008001361 Protein export membrane protein; Region: SecD_SecF; cl14618 469008001362 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 469008001363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008001364 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008001365 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 469008001366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008001367 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 469008001368 hypothetical protein; Provisional; Region: PRK11281 469008001369 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 469008001370 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 469008001371 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008001372 hypothetical protein; Provisional; Region: PRK11038 469008001373 primosomal replication protein N''; Provisional; Region: PRK10093 469008001374 hypothetical protein; Provisional; Region: PRK10527 469008001375 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008001376 active site 469008001377 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 469008001378 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 469008001379 Walker A motif; other site 469008001380 ATP binding site [chemical binding]; other site 469008001381 Walker B motif; other site 469008001382 DNA polymerase III subunit delta'; Validated; Region: PRK08485 469008001383 arginine finger; other site 469008001384 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 469008001385 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 469008001386 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 469008001387 hypothetical protein; Validated; Region: PRK00153 469008001388 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 469008001389 RecR protein; Region: RecR; pfam02132 469008001390 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 469008001391 putative active site [active] 469008001392 putative metal-binding site [ion binding]; other site 469008001393 tetramer interface [polypeptide binding]; other site 469008001394 heat shock protein 90; Provisional; Region: PRK05218 469008001395 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 469008001396 ATP binding site [chemical binding]; other site 469008001397 Mg2+ binding site [ion binding]; other site 469008001398 G-X-G motif; other site 469008001399 adenylate kinase; Reviewed; Region: adk; PRK00279 469008001400 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 469008001401 AMP-binding site [chemical binding]; other site 469008001402 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 469008001403 ferrochelatase; Region: hemH; TIGR00109 469008001404 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 469008001405 C-terminal domain interface [polypeptide binding]; other site 469008001406 active site 469008001407 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 469008001408 active site 469008001409 N-terminal domain interface [polypeptide binding]; other site 469008001410 acetyl esterase; Provisional; Region: PRK10162 469008001411 inosine/guanosine kinase; Provisional; Region: PRK15074 469008001412 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008001413 putative cation:proton antiport protein; Provisional; Region: PRK10669 469008001414 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 469008001415 TrkA-N domain; Region: TrkA_N; pfam02254 469008001416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001417 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008001418 putative substrate translocation pore; other site 469008001419 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 469008001420 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 469008001421 active site 469008001422 metal binding site [ion binding]; metal-binding site 469008001423 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 469008001424 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 469008001425 putative deacylase active site [active] 469008001426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 469008001427 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469008001428 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 469008001429 non-specific DNA binding site [nucleotide binding]; other site 469008001430 salt bridge; other site 469008001431 sequence-specific DNA binding site [nucleotide binding]; other site 469008001432 copper exporting ATPase; Provisional; Region: copA; PRK10671 469008001433 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 469008001434 metal-binding site [ion binding] 469008001435 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 469008001436 metal-binding site [ion binding] 469008001437 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008001438 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 469008001439 motif II; other site 469008001440 glutaminase; Reviewed; Region: PRK12356 469008001441 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469008001442 amino acid transporter; Region: 2A0306; TIGR00909 469008001443 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 469008001444 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 469008001445 DNA binding residues [nucleotide binding] 469008001446 dimer interface [polypeptide binding]; other site 469008001447 copper binding site [ion binding]; other site 469008001448 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 469008001449 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 469008001450 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 469008001451 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 469008001452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001453 Walker A/P-loop; other site 469008001454 ATP binding site [chemical binding]; other site 469008001455 Q-loop/lid; other site 469008001456 ABC transporter signature motif; other site 469008001457 Walker B; other site 469008001458 D-loop; other site 469008001459 H-loop/switch region; other site 469008001460 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 469008001461 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 469008001462 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 469008001463 oxidoreductase; Provisional; Region: PRK08017 469008001464 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 469008001465 NADP binding site [chemical binding]; other site 469008001466 active site 469008001467 steroid binding site; other site 469008001468 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 469008001469 active site 469008001470 catalytic triad [active] 469008001471 oxyanion hole [active] 469008001472 switch loop; other site 469008001473 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 469008001474 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008001475 Walker A/P-loop; other site 469008001476 ATP binding site [chemical binding]; other site 469008001477 Q-loop/lid; other site 469008001478 ABC transporter signature motif; other site 469008001479 Walker B; other site 469008001480 D-loop; other site 469008001481 H-loop/switch region; other site 469008001482 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 469008001483 FtsX-like permease family; Region: FtsX; pfam02687 469008001484 FtsX-like permease family; Region: FtsX; pfam02687 469008001485 PAAR motif; Region: PAAR_motif; cl15808 469008001486 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001487 RHS Repeat; Region: RHS_repeat; pfam05593 469008001488 RHS Repeat; Region: RHS_repeat; pfam05593 469008001489 RHS Repeat; Region: RHS_repeat; pfam05593 469008001490 RHS Repeat; Region: RHS_repeat; pfam05593 469008001491 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001492 RHS Repeat; Region: RHS_repeat; pfam05593 469008001493 RHS Repeat; Region: RHS_repeat; pfam05593 469008001494 RHS protein; Region: RHS; pfam03527 469008001495 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008001496 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 469008001497 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001498 RHS protein; Region: RHS; pfam03527 469008001499 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008001500 hypothetical protein; Provisional; Region: PRK14710 469008001501 Winged helix-turn helix; Region: HTH_29; pfam13551 469008001502 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001503 Predicted ATPase [General function prediction only]; Region: COG2603 469008001504 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 469008001505 active site residue [active] 469008001506 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 469008001507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008001508 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 469008001509 dimerization interface [polypeptide binding]; other site 469008001510 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 469008001511 ureidoglycolate hydrolase; Provisional; Region: PRK03606 469008001512 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 469008001513 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008001514 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008001515 glyoxylate carboligase; Provisional; Region: PRK11269 469008001516 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008001517 PYR/PP interface [polypeptide binding]; other site 469008001518 dimer interface [polypeptide binding]; other site 469008001519 TPP binding site [chemical binding]; other site 469008001520 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008001521 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 469008001522 TPP-binding site [chemical binding]; other site 469008001523 hydroxypyruvate isomerase; Provisional; Region: PRK09997 469008001524 tartronate semialdehyde reductase; Provisional; Region: PRK15059 469008001525 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008001526 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 469008001527 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 469008001528 Na binding site [ion binding]; other site 469008001529 substrate binding site [chemical binding]; other site 469008001530 allantoinase; Provisional; Region: PRK08044 469008001531 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 469008001532 active site 469008001533 putative uracil/xanthine transporter; Provisional; Region: PRK11412 469008001534 glycerate kinase II; Provisional; Region: PRK09932 469008001535 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 469008001536 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 469008001537 Cupin domain; Region: Cupin_2; cl17218 469008001538 allantoate amidohydrolase; Region: AllC; TIGR03176 469008001539 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 469008001540 active site 469008001541 metal binding site [ion binding]; metal-binding site 469008001542 dimer interface [polypeptide binding]; other site 469008001543 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 469008001544 membrane protein FdrA; Validated; Region: PRK06091 469008001545 CoA binding domain; Region: CoA_binding; pfam02629 469008001546 CoA-ligase; Region: Ligase_CoA; pfam00549 469008001547 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008001548 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008001549 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 469008001550 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 469008001551 putative substrate binding site [chemical binding]; other site 469008001552 nucleotide binding site [chemical binding]; other site 469008001553 nucleotide binding site [chemical binding]; other site 469008001554 homodimer interface [polypeptide binding]; other site 469008001555 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 469008001556 ATP-grasp domain; Region: ATP-grasp; pfam02222 469008001557 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 469008001558 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 469008001559 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008001560 putative active site [active] 469008001561 putative metal binding site [ion binding]; other site 469008001562 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 469008001563 substrate binding site [chemical binding]; other site 469008001564 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 469008001565 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469008001566 active site 469008001567 HIGH motif; other site 469008001568 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469008001569 KMSKS motif; other site 469008001570 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 469008001571 tRNA binding surface [nucleotide binding]; other site 469008001572 anticodon binding site; other site 469008001573 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 469008001574 ribosome-associated protein; Provisional; Region: PRK11507 469008001575 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 469008001576 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 469008001577 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 469008001578 homodimer interface [polypeptide binding]; other site 469008001579 NADP binding site [chemical binding]; other site 469008001580 substrate binding site [chemical binding]; other site 469008001581 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 469008001582 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 469008001583 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008001584 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008001585 outer membrane usher protein FimD; Provisional; Region: PRK15198 469008001586 PapC N-terminal domain; Region: PapC_N; pfam13954 469008001587 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008001588 PapC C-terminal domain; Region: PapC_C; pfam13953 469008001589 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 469008001590 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 469008001591 transcriptional regulator FimZ; Provisional; Region: PRK09935 469008001592 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 469008001593 active site 469008001594 phosphorylation site [posttranslational modification] 469008001595 intermolecular recognition site; other site 469008001596 dimerization interface [polypeptide binding]; other site 469008001597 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 469008001598 DNA binding residues [nucleotide binding] 469008001599 dimerization interface [polypeptide binding]; other site 469008001600 cryptic prophage, DLP12-like (qsr') 469008001601 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 469008001602 Int/Topo IB signature motif; other site 469008001603 Helix-turn-helix domain; Region: HTH_17; pfam12728 469008001604 DksA-like zinc finger domain containing protein; Region: PHA00080 469008001605 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 469008001606 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 469008001607 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008001608 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 469008001609 catalytic residues [active] 469008001610 catalytic nucleophile [active] 469008001611 Recombinase; Region: Recombinase; pfam07508 469008001612 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 469008001613 Defensin propeptide; Region: Defensin_propep; pfam00879 469008001614 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 469008001615 substrate binding site [chemical binding]; other site 469008001616 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008001617 hypothetical protein; Provisional; Region: PRK09741 469008001618 prophage protein NinE; Provisional; Region: PRK09689 469008001619 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 469008001620 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 469008001621 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 469008001622 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001624 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001625 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001626 Lysis protein S; Region: Lysis_S; pfam04971 469008001627 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 469008001628 catalytic residues [active] 469008001629 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008001630 Bor protein; Region: Lambda_Bor; pfam06291 469008001631 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 469008001632 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 469008001633 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 469008001634 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 469008001635 sensor kinase CusS; Provisional; Region: PRK09835 469008001636 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 469008001637 dimerization interface [polypeptide binding]; other site 469008001638 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 469008001639 dimer interface [polypeptide binding]; other site 469008001640 phosphorylation site [posttranslational modification] 469008001641 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 469008001642 ATP binding site [chemical binding]; other site 469008001643 Mg2+ binding site [ion binding]; other site 469008001644 G-X-G motif; other site 469008001645 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 469008001646 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 469008001647 active site 469008001648 phosphorylation site [posttranslational modification] 469008001649 intermolecular recognition site; other site 469008001650 dimerization interface [polypeptide binding]; other site 469008001651 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 469008001652 DNA binding site [nucleotide binding] 469008001653 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 469008001654 periplasmic copper-binding protein; Provisional; Region: PRK09838 469008001655 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 469008001656 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008001657 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 469008001658 phenylalanine transporter; Provisional; Region: PRK10249 469008001659 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 469008001660 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008001661 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 469008001662 dimer interface [polypeptide binding]; other site 469008001663 FMN binding site [chemical binding]; other site 469008001664 hypothetical protein; Provisional; Region: PRK10250 469008001665 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 469008001666 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 469008001667 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 469008001668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008001669 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001670 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001671 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001673 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001674 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001675 Hok/gef family; Region: HOK_GEF; pfam01848 469008001676 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008001677 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008001678 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 469008001679 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 469008001680 outer membrane receptor FepA; Provisional; Region: PRK13524 469008001681 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 469008001682 N-terminal plug; other site 469008001683 ligand-binding site [chemical binding]; other site 469008001684 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 469008001685 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 469008001686 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 469008001687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 469008001688 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 469008001689 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 469008001690 acyl-activating enzyme (AAE) consensus motif; other site 469008001691 AMP binding site [chemical binding]; other site 469008001692 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 469008001693 LPS O-antigen length regulator; Provisional; Region: PRK10381 469008001694 Chain length determinant protein; Region: Wzz; pfam02706 469008001695 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008001696 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 469008001697 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008001698 Walker A/P-loop; other site 469008001699 ATP binding site [chemical binding]; other site 469008001700 Q-loop/lid; other site 469008001701 ABC transporter signature motif; other site 469008001702 Walker B; other site 469008001703 D-loop; other site 469008001704 H-loop/switch region; other site 469008001705 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008001706 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 469008001707 ABC-ATPase subunit interface; other site 469008001708 dimer interface [polypeptide binding]; other site 469008001709 putative PBP binding regions; other site 469008001710 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008001711 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 469008001712 ABC-ATPase subunit interface; other site 469008001713 dimer interface [polypeptide binding]; other site 469008001714 putative PBP binding regions; other site 469008001715 enterobactin exporter EntS; Provisional; Region: PRK10489 469008001716 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001717 putative substrate translocation pore; other site 469008001718 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 469008001719 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 469008001720 siderophore binding site; other site 469008001721 isochorismate synthase EntC; Provisional; Region: PRK15016 469008001722 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 469008001723 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 469008001724 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 469008001725 acyl-activating enzyme (AAE) consensus motif; other site 469008001726 active site 469008001727 AMP binding site [chemical binding]; other site 469008001728 substrate binding site [chemical binding]; other site 469008001729 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 469008001730 hydrophobic substrate binding pocket; other site 469008001731 Isochorismatase family; Region: Isochorismatase; pfam00857 469008001732 active site 469008001733 conserved cis-peptide bond; other site 469008001734 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 469008001735 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 469008001736 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 469008001737 putative NAD(P) binding site [chemical binding]; other site 469008001738 active site 469008001739 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 469008001740 CoenzymeA binding site [chemical binding]; other site 469008001741 subunit interaction site [polypeptide binding]; other site 469008001742 PHB binding site; other site 469008001743 Uncharacterized small protein [Function unknown]; Region: COG2879 469008001744 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 469008001745 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 469008001746 putative active site [active] 469008001747 metal binding site [ion binding]; metal-binding site 469008001748 methionine aminotransferase; Validated; Region: PRK09082 469008001749 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 469008001750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008001751 homodimer interface [polypeptide binding]; other site 469008001752 catalytic residue [active] 469008001753 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 469008001754 ParB-like nuclease domain; Region: ParBc; pfam02195 469008001755 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 469008001756 Active Sites [active] 469008001757 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 469008001758 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001760 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001761 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001762 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 469008001763 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 469008001764 dimerization domain [polypeptide binding]; other site 469008001765 dimer interface [polypeptide binding]; other site 469008001766 catalytic residues [active] 469008001767 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 469008001768 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 469008001769 dimer interface [polypeptide binding]; other site 469008001770 decamer (pentamer of dimers) interface [polypeptide binding]; other site 469008001771 catalytic triad [active] 469008001772 peroxidatic and resolving cysteines [active] 469008001773 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 469008001774 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 469008001775 catalytic residue [active] 469008001776 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 469008001777 catalytic residues [active] 469008001778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008001779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008001780 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 469008001781 Ligand Binding Site [chemical binding]; other site 469008001782 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 469008001783 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008001784 NAD binding site [chemical binding]; other site 469008001785 catalytic Zn binding site [ion binding]; other site 469008001786 structural Zn binding site [ion binding]; other site 469008001787 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 469008001788 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008001789 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 469008001790 B1 nucleotide binding pocket [chemical binding]; other site 469008001791 B2 nucleotide binding pocket [chemical binding]; other site 469008001792 CAS motifs; other site 469008001793 active site 469008001794 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008001795 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 469008001796 transmembrane helices; other site 469008001797 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 469008001798 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 469008001799 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 469008001800 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 469008001801 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 469008001802 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 469008001803 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 469008001804 putative active site [active] 469008001805 (T/H)XGH motif; other site 469008001806 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001808 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001809 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001810 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 469008001811 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 469008001812 putative active site [active] 469008001813 heme pocket [chemical binding]; other site 469008001814 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 469008001815 ATP binding site [chemical binding]; other site 469008001816 Mg2+ binding site [ion binding]; other site 469008001817 G-X-G motif; other site 469008001818 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 469008001819 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 469008001820 active site 469008001821 phosphorylation site [posttranslational modification] 469008001822 intermolecular recognition site; other site 469008001823 dimerization interface [polypeptide binding]; other site 469008001824 Transcriptional regulator; Region: CitT; pfam12431 469008001825 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 469008001826 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008001827 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 469008001828 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 469008001829 DNA-binding site [nucleotide binding]; DNA binding site 469008001830 RNA-binding motif; other site 469008001831 chromosome condensation membrane protein; Provisional; Region: PRK14196 469008001832 Predicted amidohydrolase [General function prediction only]; Region: COG0388 469008001833 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 469008001834 putative active site [active] 469008001835 catalytic triad [active] 469008001836 putative dimer interface [polypeptide binding]; other site 469008001837 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 469008001838 lipoyl synthase; Provisional; Region: PRK05481 469008001839 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 469008001840 FeS/SAM binding site; other site 469008001841 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 469008001842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008001843 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 469008001844 substrate binding pocket [chemical binding]; other site 469008001845 dimerization interface [polypeptide binding]; other site 469008001846 lipoate-protein ligase B; Provisional; Region: PRK14342 469008001847 hypothetical protein; Provisional; Region: PRK04998 469008001848 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 469008001849 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008001850 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 469008001851 rare lipoprotein A; Provisional; Region: PRK10672 469008001852 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 469008001853 Sporulation related domain; Region: SPOR; pfam05036 469008001854 cell wall shape-determining protein; Provisional; Region: PRK10794 469008001855 penicillin-binding protein 2; Provisional; Region: PRK10795 469008001856 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469008001857 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469008001858 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 469008001859 ribosome-associated protein; Provisional; Region: PRK11538 469008001860 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 469008001861 catalytic core [active] 469008001862 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 469008001863 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 469008001864 active site 469008001865 (T/H)XGH motif; other site 469008001866 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 469008001867 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 469008001868 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 469008001869 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 469008001870 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469008001871 HIGH motif; other site 469008001872 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469008001873 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469008001874 active site 469008001875 KMSKS motif; other site 469008001876 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 469008001877 tRNA binding surface [nucleotide binding]; other site 469008001878 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469008001879 hypothetical protein; Provisional; Region: PRK11032 469008001880 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 469008001881 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 469008001882 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 469008001883 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 469008001884 nucleotide binding site [chemical binding]; other site 469008001885 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008001886 SBD interface [polypeptide binding]; other site 469008001887 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 469008001888 active site 469008001889 tetramer interface [polypeptide binding]; other site 469008001890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008001891 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001892 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001893 putative transposase OrfB; Reviewed; Region: PHA02517 469008001894 HTH-like domain; Region: HTH_21; pfam13276 469008001895 Integrase core domain; Region: rve; pfam00665 469008001896 Integrase core domain; Region: rve_2; pfam13333 469008001897 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008001898 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 469008001899 dimer interface [polypeptide binding]; other site 469008001900 conserved gate region; other site 469008001901 putative PBP binding loops; other site 469008001902 ABC-ATPase subunit interface; other site 469008001903 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008001904 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 469008001905 dimer interface [polypeptide binding]; other site 469008001906 conserved gate region; other site 469008001907 putative PBP binding loops; other site 469008001908 ABC-ATPase subunit interface; other site 469008001909 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 469008001910 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 469008001911 substrate binding pocket [chemical binding]; other site 469008001912 membrane-bound complex binding site; other site 469008001913 hinge residues; other site 469008001914 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 469008001915 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 469008001916 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 469008001917 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 469008001918 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 469008001919 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 469008001920 putative active site [active] 469008001921 catalytic triad [active] 469008001922 putative dimer interface [polypeptide binding]; other site 469008001923 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 469008001924 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 469008001925 Transporter associated domain; Region: CorC_HlyC; smart01091 469008001926 metal-binding heat shock protein; Provisional; Region: PRK00016 469008001927 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 469008001928 PhoH-like protein; Region: PhoH; pfam02562 469008001929 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 469008001930 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469008001931 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 469008001932 FeS/SAM binding site; other site 469008001933 TRAM domain; Region: TRAM; pfam01938 469008001934 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 469008001935 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008001936 asparagine synthetase B; Provisional; Region: asnB; PRK09431 469008001937 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 469008001938 active site 469008001939 dimer interface [polypeptide binding]; other site 469008001940 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 469008001941 Ligand Binding Site [chemical binding]; other site 469008001942 Molecular Tunnel; other site 469008001943 UMP phosphatase; Provisional; Region: PRK10444 469008001944 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 469008001945 active site 469008001946 motif I; other site 469008001947 motif II; other site 469008001948 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 469008001949 MarR family; Region: MarR; pfam01047 469008001950 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008001951 ROK family; Region: ROK; pfam00480 469008001952 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 469008001953 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 469008001954 active site 469008001955 dimer interface [polypeptide binding]; other site 469008001956 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008001957 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 469008001958 active site 469008001959 trimer interface [polypeptide binding]; other site 469008001960 allosteric site; other site 469008001961 active site lid [active] 469008001962 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008001963 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 469008001964 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008001965 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 469008001966 active site turn [active] 469008001967 phosphorylation site [posttranslational modification] 469008001968 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 469008001969 HPr interaction site; other site 469008001970 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008001971 active site 469008001972 phosphorylation site [posttranslational modification] 469008001973 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 469008001974 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469008001975 active site 469008001976 HIGH motif; other site 469008001977 nucleotide binding site [chemical binding]; other site 469008001978 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 469008001979 KMSKS motif; other site 469008001980 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 469008001981 outer membrane porin, OprD family; Region: OprD; pfam03573 469008001982 YbfN-like lipoprotein; Region: YbfN; pfam13982 469008001983 ferric uptake regulator; Provisional; Region: fur; PRK09462 469008001984 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469008001985 metal binding site 2 [ion binding]; metal-binding site 469008001986 putative DNA binding helix; other site 469008001987 metal binding site 1 [ion binding]; metal-binding site 469008001988 dimer interface [polypeptide binding]; other site 469008001989 structural Zn2+ binding site [ion binding]; other site 469008001990 flavodoxin FldA; Validated; Region: PRK09267 469008001991 LexA regulated protein; Provisional; Region: PRK11675 469008001992 acyl-CoA esterase; Provisional; Region: PRK10673 469008001993 PGAP1-like protein; Region: PGAP1; pfam07819 469008001994 replication initiation regulator SeqA; Provisional; Region: PRK11187 469008001995 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 469008001996 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 469008001997 active site 469008001998 substrate binding site [chemical binding]; other site 469008001999 metal binding site [ion binding]; metal-binding site 469008002000 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 469008002001 putrescine transporter; Provisional; Region: potE; PRK10655 469008002002 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 469008002003 ornithine decarboxylase; Provisional; Region: PRK13578 469008002004 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008002005 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 469008002006 homodimer interface [polypeptide binding]; other site 469008002007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002008 catalytic residue [active] 469008002009 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008002010 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 469008002011 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 469008002012 active site 469008002013 phosphorylation site [posttranslational modification] 469008002014 intermolecular recognition site; other site 469008002015 dimerization interface [polypeptide binding]; other site 469008002016 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 469008002017 DNA binding site [nucleotide binding] 469008002018 sensor protein KdpD; Provisional; Region: PRK10490 469008002019 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 469008002020 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 469008002021 Ligand Binding Site [chemical binding]; other site 469008002022 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 469008002023 GAF domain; Region: GAF_3; pfam13492 469008002024 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 469008002025 dimer interface [polypeptide binding]; other site 469008002026 phosphorylation site [posttranslational modification] 469008002027 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 469008002028 ATP binding site [chemical binding]; other site 469008002029 Mg2+ binding site [ion binding]; other site 469008002030 G-X-G motif; other site 469008002031 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 469008002032 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 469008002033 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008002034 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 469008002035 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 469008002036 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008002037 RHS Repeat; Region: RHS_repeat; cl11982 469008002038 RHS protein; Region: RHS; pfam03527 469008002039 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008002040 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008002041 RHS protein; Region: RHS; pfam03527 469008002042 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008002043 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008002044 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008002045 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008002046 hypothetical protein; Provisional; Region: PRK10167 469008002047 Uncharacterized conserved protein [Function unknown]; Region: COG3272 469008002048 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 469008002049 DNA photolyase; Region: DNA_photolyase; pfam00875 469008002050 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008002051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002052 putative substrate translocation pore; other site 469008002053 POT family; Region: PTR2; pfam00854 469008002054 Uncharacterized conserved protein [Function unknown]; Region: COG0327 469008002055 metal-binding protein; Provisional; Region: PRK10799 469008002056 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 469008002057 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 469008002058 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 469008002059 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 469008002060 putative active site [active] 469008002061 endonuclease VIII; Provisional; Region: PRK10445 469008002062 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 469008002063 DNA binding site [nucleotide binding] 469008002064 catalytic residue [active] 469008002065 putative catalytic residues [active] 469008002066 H2TH interface [polypeptide binding]; other site 469008002067 intercalation triad [nucleotide binding]; other site 469008002068 substrate specificity determining residue; other site 469008002069 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 469008002070 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008002071 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 469008002072 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469008002073 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469008002074 Fimbrial protein; Region: Fimbrial; pfam00419 469008002075 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008002076 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008002077 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008002078 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008002079 PapC N-terminal domain; Region: PapC_N; pfam13954 469008002080 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008002081 PapC C-terminal domain; Region: PapC_C; pfam13953 469008002082 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008002083 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 469008002084 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 469008002085 dimer interface [polypeptide binding]; other site 469008002086 active site 469008002087 citrylCoA binding site [chemical binding]; other site 469008002088 NADH binding [chemical binding]; other site 469008002089 cationic pore residues; other site 469008002090 oxalacetate/citrate binding site [chemical binding]; other site 469008002091 coenzyme A binding site [chemical binding]; other site 469008002092 catalytic triad [active] 469008002093 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 469008002094 Iron-sulfur protein interface; other site 469008002095 proximal quinone binding site [chemical binding]; other site 469008002096 SdhD (CybS) interface [polypeptide binding]; other site 469008002097 proximal heme binding site [chemical binding]; other site 469008002098 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 469008002099 SdhC subunit interface [polypeptide binding]; other site 469008002100 proximal heme binding site [chemical binding]; other site 469008002101 cardiolipin binding site; other site 469008002102 Iron-sulfur protein interface; other site 469008002103 proximal quinone binding site [chemical binding]; other site 469008002104 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 469008002105 L-aspartate oxidase; Provisional; Region: PRK06175 469008002106 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008002107 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 469008002108 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 469008002109 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 469008002110 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 469008002111 TPP-binding site [chemical binding]; other site 469008002112 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 469008002113 dimer interface [polypeptide binding]; other site 469008002114 PYR/PP interface [polypeptide binding]; other site 469008002115 TPP binding site [chemical binding]; other site 469008002116 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 469008002117 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 469008002118 E3 interaction surface; other site 469008002119 lipoyl attachment site [posttranslational modification]; other site 469008002120 e3 binding domain; Region: E3_binding; pfam02817 469008002121 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 469008002122 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 469008002123 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 469008002124 CoA-ligase; Region: Ligase_CoA; pfam00549 469008002125 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 469008002126 CoA binding domain; Region: CoA_binding; smart00881 469008002127 CoA-ligase; Region: Ligase_CoA; pfam00549 469008002128 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 469008002129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008002130 DNA-binding site [nucleotide binding]; DNA binding site 469008002131 UTRA domain; Region: UTRA; pfam07702 469008002132 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 469008002133 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 469008002134 active site 469008002135 phosphorylation site [posttranslational modification] 469008002136 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 469008002137 active site 469008002138 P-loop; other site 469008002139 phosphorylation site [posttranslational modification] 469008002140 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008002141 alpha-mannosidase; Provisional; Region: PRK09819 469008002142 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 469008002143 active site 469008002144 metal binding site [ion binding]; metal-binding site 469008002145 catalytic site [active] 469008002146 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 469008002147 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 469008002148 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 469008002149 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 469008002150 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 469008002151 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 469008002152 hypothetical protein; Provisional; Region: PRK10588 469008002153 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 469008002154 active site 469008002155 colicin uptake protein TolQ; Provisional; Region: PRK10801 469008002156 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469008002157 colicin uptake protein TolR; Provisional; Region: PRK11024 469008002158 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 469008002159 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 469008002160 TolA C-terminal; Region: TolA; pfam06519 469008002161 translocation protein TolB; Provisional; Region: tolB; PRK03629 469008002162 TolB amino-terminal domain; Region: TolB_N; pfam04052 469008002163 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002164 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002165 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002166 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 469008002167 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008002168 ligand binding site [chemical binding]; other site 469008002169 tol-pal system protein YbgF; Provisional; Region: PRK10803 469008002170 Tetratricopeptide repeat; Region: TPR_6; pfam13174 469008002171 Tetratricopeptide repeat; Region: TPR_6; pfam13174 469008002172 quinolinate synthetase; Provisional; Region: PRK09375 469008002173 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 469008002174 zinc transporter ZitB; Provisional; Region: PRK03557 469008002175 YbgS-like protein; Region: YbgS; pfam13985 469008002176 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 469008002177 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008002178 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 469008002179 catalytic core [active] 469008002180 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 469008002181 acyl-CoA thioesterase; Provisional; Region: PRK10531 469008002182 putative pectinesterase; Region: PLN02432; cl01911 469008002183 cryptic prophage DE3; also submitted separately as GenBank Accession Number EU078592 469008002184 lac repressor; Reviewed; Region: lacI; PRK09526 469008002185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008002186 DNA binding site [nucleotide binding] 469008002187 domain linker motif; other site 469008002188 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 469008002189 ligand binding site [chemical binding]; other site 469008002190 dimerization interface (open form) [polypeptide binding]; other site 469008002191 dimerization interface (closed form) [polypeptide binding]; other site 469008002192 T3/T7-like RNA polymerase; Region: PHA00452 469008002193 Excisionase-like protein; Region: Exc; pfam07825 469008002194 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 469008002195 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 469008002196 Protein of unknown function (DUF1317); Region: DUF1317; pfam07026 469008002197 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 469008002198 phage recombination protein Bet; Region: bet_lambda; TIGR01913 469008002199 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 469008002200 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 469008002201 Lambda Phage CIII; Region: Lambda_CIII; pfam02061 469008002202 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 469008002203 Antirestriction protein Ral; Region: Ral; pfam11058 469008002204 imm21 region 469008002205 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 469008002206 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 469008002207 non-specific DNA binding site [nucleotide binding]; other site 469008002208 salt bridge; other site 469008002209 sequence-specific DNA binding site [nucleotide binding]; other site 469008002210 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 469008002211 Catalytic site [active] 469008002212 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 469008002213 Bacteriophage CII protein; Region: Phage_CII; pfam05269 469008002214 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 469008002215 Replication protein P; Region: Phage_lambda_P; pfam06992 469008002216 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008002217 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 469008002218 active site 469008002219 metal binding site [ion binding]; metal-binding site 469008002220 Antitermination protein; Region: Antiterm; pfam03589 469008002221 Antitermination protein; Region: Antiterm; pfam03589 469008002222 phage holin, lambda family; Region: holin_lambda; TIGR01594 469008002223 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 469008002224 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008002225 catalytic residue [active] 469008002226 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008002227 Bor protein; Region: Lambda_Bor; pfam06291 469008002228 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 469008002229 cos site 469008002230 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 469008002231 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 469008002232 gpW; Region: gpW; pfam02831 469008002233 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 469008002234 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 469008002235 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 469008002236 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 469008002237 tandem repeat interface [polypeptide binding]; other site 469008002238 oligomer interface [polypeptide binding]; other site 469008002239 active site residues [active] 469008002240 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 469008002241 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 469008002242 DNA packaging protein FI; Region: Packaging_FI; pfam14000 469008002243 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 469008002244 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 469008002245 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 469008002246 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 469008002247 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 469008002248 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 469008002249 Minor tail protein T; Region: Phage_tail_T; pfam06223 469008002250 Phage-related minor tail protein [Function unknown]; Region: COG5281 469008002251 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 469008002252 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 469008002253 Phage-related protein [Function unknown]; Region: COG4718 469008002254 Phage-related protein [Function unknown]; Region: gp18; COG4672 469008002255 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 469008002256 MPN+ (JAMM) motif; other site 469008002257 Zinc-binding site [ion binding]; other site 469008002258 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008002259 NlpC/P60 family; Region: NLPC_P60; cl17555 469008002260 Phage-related protein, tail component [Function unknown]; Region: COG4723 469008002261 Phage-related protein, tail component [Function unknown]; Region: COG4733 469008002262 Putative phage tail protein; Region: Phage-tail_3; pfam13550 469008002263 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 469008002264 Fibronectin type III protein; Region: DUF3672; pfam12421 469008002265 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 469008002266 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 469008002267 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 469008002268 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002269 Walker A/P-loop; other site 469008002270 ATP binding site [chemical binding]; other site 469008002271 lambda attachement site, right 469008002272 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 469008002273 substrate binding site [chemical binding]; other site 469008002274 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 469008002275 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 469008002276 inhibitor-cofactor binding pocket; inhibition site 469008002277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002278 catalytic residue [active] 469008002279 biotin synthase; Provisional; Region: PRK15108 469008002280 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 469008002281 FeS/SAM binding site; other site 469008002282 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 469008002283 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008002284 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 469008002285 substrate-cofactor binding pocket; other site 469008002286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002287 catalytic residue [active] 469008002288 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 469008002289 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 469008002290 S-adenosylmethionine binding site [chemical binding]; other site 469008002291 AAA domain; Region: AAA_26; pfam13500 469008002292 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 469008002293 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 469008002294 ADP binding site [chemical binding]; other site 469008002295 excinuclease ABC subunit B; Provisional; Region: PRK05298 469008002296 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 469008002297 ATP binding site [chemical binding]; other site 469008002298 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 469008002299 nucleotide binding region [chemical binding]; other site 469008002300 ATP-binding site [chemical binding]; other site 469008002301 Ultra-violet resistance protein B; Region: UvrB; pfam12344 469008002302 UvrB/uvrC motif; Region: UVR; pfam02151 469008002303 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 469008002304 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 469008002305 putative substrate binding pocket [chemical binding]; other site 469008002306 dimer interface [polypeptide binding]; other site 469008002307 phosphate binding site [ion binding]; other site 469008002308 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 469008002309 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 469008002310 FeS/SAM binding site; other site 469008002311 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 469008002312 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 469008002313 MPT binding site; other site 469008002314 trimer interface [polypeptide binding]; other site 469008002315 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 469008002316 trimer interface [polypeptide binding]; other site 469008002317 dimer interface [polypeptide binding]; other site 469008002318 putative active site [active] 469008002319 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 469008002320 MoaE interaction surface [polypeptide binding]; other site 469008002321 MoeB interaction surface [polypeptide binding]; other site 469008002322 thiocarboxylated glycine; other site 469008002323 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 469008002324 MoaE homodimer interface [polypeptide binding]; other site 469008002325 MoaD interaction [polypeptide binding]; other site 469008002326 active site residues [active] 469008002327 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008002328 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469008002329 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008002330 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469008002331 Predicted integral membrane protein [Function unknown]; Region: COG0392 469008002332 cardiolipin synthase 2; Provisional; Region: PRK11263 469008002333 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 469008002334 putative active site [active] 469008002335 catalytic site [active] 469008002336 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 469008002337 putative active site [active] 469008002338 catalytic site [active] 469008002339 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 469008002340 putative catalytic site [active] 469008002341 putative metal binding site [ion binding]; other site 469008002342 putative phosphate binding site [ion binding]; other site 469008002343 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 469008002344 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008002345 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008002346 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008002347 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 469008002348 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 469008002349 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008002350 Walker A/P-loop; other site 469008002351 ATP binding site [chemical binding]; other site 469008002352 Q-loop/lid; other site 469008002353 ABC transporter signature motif; other site 469008002354 Walker B; other site 469008002355 D-loop; other site 469008002356 H-loop/switch region; other site 469008002357 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 469008002358 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008002359 Walker A/P-loop; other site 469008002360 ATP binding site [chemical binding]; other site 469008002361 Q-loop/lid; other site 469008002362 ABC transporter signature motif; other site 469008002363 Walker B; other site 469008002364 D-loop; other site 469008002365 H-loop/switch region; other site 469008002366 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 469008002367 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008002368 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008002369 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 469008002370 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 469008002371 helicase 45; Provisional; Region: PTZ00424 469008002372 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 469008002373 ATP binding site [chemical binding]; other site 469008002374 Mg++ binding site [ion binding]; other site 469008002375 motif III; other site 469008002376 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 469008002377 nucleotide binding region [chemical binding]; other site 469008002378 ATP-binding site [chemical binding]; other site 469008002379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 469008002380 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 469008002381 DEAD_2; Region: DEAD_2; pfam06733 469008002382 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469008002383 glycosyl transferase family protein; Provisional; Region: PRK08136 469008002384 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008002385 putative dehydrogenase; Provisional; Region: PRK10098 469008002386 hypothetical protein; Provisional; Region: PRK10259 469008002387 hypothetical protein; Provisional; Region: PRK11019 469008002388 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 469008002389 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 469008002390 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 469008002391 N-terminal plug; other site 469008002392 ligand-binding site [chemical binding]; other site 469008002393 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008002394 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 469008002395 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 469008002396 putative mechanosensitive channel protein; Provisional; Region: PRK11465 469008002397 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008002398 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 469008002399 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008002400 Walker A/P-loop; other site 469008002401 ATP binding site [chemical binding]; other site 469008002402 Q-loop/lid; other site 469008002403 ABC transporter signature motif; other site 469008002404 Walker B; other site 469008002405 D-loop; other site 469008002406 H-loop/switch region; other site 469008002407 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008002408 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 469008002409 dimer interface [polypeptide binding]; other site 469008002410 conserved gate region; other site 469008002411 putative PBP binding loops; other site 469008002412 ABC-ATPase subunit interface; other site 469008002413 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 469008002414 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 469008002415 substrate binding pocket [chemical binding]; other site 469008002416 membrane-bound complex binding site; other site 469008002417 hinge residues; other site 469008002418 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 469008002419 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 469008002420 dimerization interface [polypeptide binding]; other site 469008002421 DPS ferroxidase diiron center [ion binding]; other site 469008002422 ion pore; other site 469008002423 threonine and homoserine efflux system; Provisional; Region: PRK10532 469008002424 EamA-like transporter family; Region: EamA; pfam00892 469008002425 outer membrane protein X; Provisional; Region: ompX; PRK09408 469008002426 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 469008002427 Sulfatase; Region: Sulfatase; pfam00884 469008002428 manganese transport regulator MntR; Provisional; Region: PRK11050 469008002429 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 469008002430 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 469008002431 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008002432 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 469008002433 transmembrane helices; other site 469008002434 L,D-transpeptidase; Provisional; Region: PRK10260 469008002435 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002436 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 469008002437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002438 Walker A/P-loop; other site 469008002439 ATP binding site [chemical binding]; other site 469008002440 Q-loop/lid; other site 469008002441 ABC transporter signature motif; other site 469008002442 Walker B; other site 469008002443 D-loop; other site 469008002444 H-loop/switch region; other site 469008002445 ABC transporter; Region: ABC_tran_2; pfam12848 469008002446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008002447 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 469008002448 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 469008002449 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 469008002450 active site 469008002451 motif I; other site 469008002452 motif II; other site 469008002453 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 469008002454 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 469008002455 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 469008002456 dimer interface [polypeptide binding]; other site 469008002457 active site 469008002458 glycine loop; other site 469008002459 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 469008002460 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 469008002461 active site 469008002462 intersubunit interactions; other site 469008002463 catalytic residue [active] 469008002464 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 469008002465 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 469008002466 ATP binding site [chemical binding]; other site 469008002467 substrate interface [chemical binding]; other site 469008002468 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 469008002469 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 469008002470 dimer interface [polypeptide binding]; other site 469008002471 putative functional site; other site 469008002472 putative MPT binding site; other site 469008002473 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 469008002474 catalytic nucleophile [active] 469008002475 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 469008002476 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008002477 Walker A/P-loop; other site 469008002478 ATP binding site [chemical binding]; other site 469008002479 Q-loop/lid; other site 469008002480 ABC transporter signature motif; other site 469008002481 Walker B; other site 469008002482 D-loop; other site 469008002483 H-loop/switch region; other site 469008002484 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008002485 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008002486 Walker A/P-loop; other site 469008002487 ATP binding site [chemical binding]; other site 469008002488 Q-loop/lid; other site 469008002489 ABC transporter signature motif; other site 469008002490 Walker B; other site 469008002491 D-loop; other site 469008002492 H-loop/switch region; other site 469008002493 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008002494 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 469008002495 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 469008002496 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 469008002497 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 469008002498 dimer interface [polypeptide binding]; other site 469008002499 conserved gate region; other site 469008002500 putative PBP binding loops; other site 469008002501 ABC-ATPase subunit interface; other site 469008002502 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 469008002503 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008002504 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 469008002505 dimer interface [polypeptide binding]; other site 469008002506 conserved gate region; other site 469008002507 putative PBP binding loops; other site 469008002508 ABC-ATPase subunit interface; other site 469008002509 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 469008002510 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008002511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008002512 metal binding site [ion binding]; metal-binding site 469008002513 active site 469008002514 I-site; other site 469008002515 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 469008002516 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469008002517 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 469008002518 FeS/SAM binding site; other site 469008002519 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 469008002520 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 469008002521 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 469008002522 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 469008002523 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 469008002524 putative C-terminal domain interface [polypeptide binding]; other site 469008002525 putative GSH binding site (G-site) [chemical binding]; other site 469008002526 putative dimer interface [polypeptide binding]; other site 469008002527 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 469008002528 N-terminal domain interface [polypeptide binding]; other site 469008002529 dimer interface [polypeptide binding]; other site 469008002530 substrate binding pocket (H-site) [chemical binding]; other site 469008002531 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 469008002532 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008002533 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 469008002534 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 469008002535 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008002536 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008002537 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 469008002538 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008002539 active site 469008002540 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 469008002541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002542 putative substrate translocation pore; other site 469008002543 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 469008002544 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 469008002545 active site 469008002546 motif I; other site 469008002547 motif II; other site 469008002548 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 469008002549 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469008002550 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002551 putative substrate translocation pore; other site 469008002552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008002553 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 469008002554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008002555 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 469008002556 cryptic prophage, 186-like (REL606-specific) 469008002557 integrase; Provisional; Region: int; PHA02601 469008002558 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 469008002559 active site 469008002560 DNA binding site [nucleotide binding] 469008002561 Int/Topo IB signature motif; other site 469008002562 Predicted transcriptional regulator [Transcription]; Region: COG2932 469008002563 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 469008002564 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 469008002565 Catalytic site [active] 469008002566 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 469008002567 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 469008002568 DinI-like family; Region: DinI; pfam06183 469008002569 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 469008002570 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 469008002571 putative active site [active] 469008002572 putative NTP binding site [chemical binding]; other site 469008002573 putative nucleic acid binding site [nucleotide binding]; other site 469008002574 portal vertex protein; Provisional; Region: Q; PHA02536 469008002575 Phage portal protein; Region: Phage_portal; pfam04860 469008002576 terminase ATPase subunit; Provisional; Region: P; PHA02535 469008002577 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 469008002578 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 469008002579 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 469008002580 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 469008002581 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 469008002582 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 469008002583 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 469008002584 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 469008002585 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 469008002586 baseplate wedge subunit; Provisional; Region: W; PHA02516 469008002587 baseplate assembly protein; Provisional; Region: J; PHA02568 469008002588 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 469008002589 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 469008002590 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 469008002591 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 469008002592 Phage Tail Collar Domain; Region: Collar; pfam07484 469008002593 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008002594 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 469008002595 catalytic residues [active] 469008002596 catalytic nucleophile [active] 469008002597 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 469008002598 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 469008002599 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 469008002600 putative transporter; Provisional; Region: PRK04972 469008002601 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469008002602 TrkA-C domain; Region: TrkA_C; pfam02080 469008002603 TrkA-C domain; Region: TrkA_C; pfam02080 469008002604 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 469008002605 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 469008002606 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 469008002607 GSH binding site [chemical binding]; other site 469008002608 catalytic residues [active] 469008002609 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 469008002610 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 469008002611 dimer interface [polypeptide binding]; other site 469008002612 FMN binding site [chemical binding]; other site 469008002613 NADPH bind site [chemical binding]; other site 469008002614 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 469008002615 RimK-like ATP-grasp domain; Region: RimK; pfam08443 469008002616 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 469008002617 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 469008002618 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 469008002619 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 469008002620 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002621 Walker A/P-loop; other site 469008002622 ATP binding site [chemical binding]; other site 469008002623 Q-loop/lid; other site 469008002624 ABC transporter signature motif; other site 469008002625 Walker B; other site 469008002626 D-loop; other site 469008002627 H-loop/switch region; other site 469008002628 TOBE domain; Region: TOBE_2; pfam08402 469008002629 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469008002630 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 469008002631 dimer interface [polypeptide binding]; other site 469008002632 conserved gate region; other site 469008002633 putative PBP binding loops; other site 469008002634 ABC-ATPase subunit interface; other site 469008002635 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008002636 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 469008002637 dimer interface [polypeptide binding]; other site 469008002638 conserved gate region; other site 469008002639 putative PBP binding loops; other site 469008002640 ABC-ATPase subunit interface; other site 469008002641 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 469008002642 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 469008002643 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 469008002644 S-adenosylmethionine binding site [chemical binding]; other site 469008002645 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 469008002646 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 469008002647 substrate binding pocket [chemical binding]; other site 469008002648 membrane-bound complex binding site; other site 469008002649 hinge residues; other site 469008002650 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 469008002651 dimer interface [polypeptide binding]; other site 469008002652 conserved gate region; other site 469008002653 putative PBP binding loops; other site 469008002654 ABC-ATPase subunit interface; other site 469008002655 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008002656 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 469008002657 dimer interface [polypeptide binding]; other site 469008002658 conserved gate region; other site 469008002659 putative PBP binding loops; other site 469008002660 ABC-ATPase subunit interface; other site 469008002661 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 469008002662 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 469008002663 substrate binding pocket [chemical binding]; other site 469008002664 membrane-bound complex binding site; other site 469008002665 hinge residues; other site 469008002666 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 469008002667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002668 Walker A/P-loop; other site 469008002669 ATP binding site [chemical binding]; other site 469008002670 Q-loop/lid; other site 469008002671 ABC transporter signature motif; other site 469008002672 Walker B; other site 469008002673 D-loop; other site 469008002674 H-loop/switch region; other site 469008002675 putative lipoprotein; Provisional; Region: PRK10533 469008002676 hypothetical protein; Provisional; Region: PRK02877 469008002677 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469008002678 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 469008002679 amidase catalytic site [active] 469008002680 Zn binding residues [ion binding]; other site 469008002681 substrate binding site [chemical binding]; other site 469008002682 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008002683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008002684 NAD(P) binding site [chemical binding]; other site 469008002685 active site 469008002686 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 469008002687 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 469008002688 putative NAD(P) binding site [chemical binding]; other site 469008002689 putative active site [active] 469008002690 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 469008002691 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 469008002692 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 469008002693 tetramer interface [polypeptide binding]; other site 469008002694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002695 catalytic residue [active] 469008002696 pyruvate dehydrogenase; Provisional; Region: PRK09124 469008002697 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 469008002698 PYR/PP interface [polypeptide binding]; other site 469008002699 dimer interface [polypeptide binding]; other site 469008002700 tetramer interface [polypeptide binding]; other site 469008002701 TPP binding site [chemical binding]; other site 469008002702 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008002703 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 469008002704 TPP-binding site [chemical binding]; other site 469008002705 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 469008002706 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 469008002707 FAD binding pocket [chemical binding]; other site 469008002708 FAD binding motif [chemical binding]; other site 469008002709 phosphate binding motif [ion binding]; other site 469008002710 beta-alpha-beta structure motif; other site 469008002711 NAD binding pocket [chemical binding]; other site 469008002712 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 469008002713 catalytic loop [active] 469008002714 iron binding site [ion binding]; other site 469008002715 hybrid cluster protein; Provisional; Region: PRK05290 469008002716 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 469008002717 ACS interaction site; other site 469008002718 CODH interaction site; other site 469008002719 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 469008002720 hybrid metal cluster; other site 469008002721 Predicted membrane protein [Function unknown]; Region: COG2431 469008002722 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 469008002723 amphipathic channel; other site 469008002724 Asn-Pro-Ala signature motifs; other site 469008002725 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 469008002726 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 469008002727 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 469008002728 putative active site [active] 469008002729 putative metal-binding site [ion binding]; other site 469008002730 Protein of unknown function (DUF535); Region: DUF535; pfam04393 469008002731 macrolide transporter subunit MacA; Provisional; Region: PRK11578 469008002732 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008002733 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008002734 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 469008002735 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008002736 Walker A/P-loop; other site 469008002737 ATP binding site [chemical binding]; other site 469008002738 Q-loop/lid; other site 469008002739 ABC transporter signature motif; other site 469008002740 Walker B; other site 469008002741 D-loop; other site 469008002742 H-loop/switch region; other site 469008002743 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008002744 FtsX-like permease family; Region: FtsX; pfam02687 469008002745 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 469008002746 DNA-binding site [nucleotide binding]; DNA binding site 469008002747 RNA-binding motif; other site 469008002748 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 469008002749 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 469008002750 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 469008002751 Walker A motif; other site 469008002752 ATP binding site [chemical binding]; other site 469008002753 Walker B motif; other site 469008002754 arginine finger; other site 469008002755 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 469008002756 Walker A motif; other site 469008002757 ATP binding site [chemical binding]; other site 469008002758 Walker B motif; other site 469008002759 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 469008002760 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 469008002761 rRNA binding site [nucleotide binding]; other site 469008002762 predicted 30S ribosome binding site; other site 469008002763 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 469008002764 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 469008002765 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002766 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 469008002767 Walker A/P-loop; other site 469008002768 ATP binding site [chemical binding]; other site 469008002769 Q-loop/lid; other site 469008002770 ABC transporter signature motif; other site 469008002771 Walker B; other site 469008002772 D-loop; other site 469008002773 H-loop/switch region; other site 469008002774 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 469008002775 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002777 Walker A/P-loop; other site 469008002778 ATP binding site [chemical binding]; other site 469008002779 Q-loop/lid; other site 469008002780 ABC transporter signature motif; other site 469008002781 Walker B; other site 469008002782 D-loop; other site 469008002783 H-loop/switch region; other site 469008002784 thioredoxin reductase; Provisional; Region: PRK10262 469008002785 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008002786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008002787 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 469008002788 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 469008002789 putative DNA binding site [nucleotide binding]; other site 469008002790 putative Zn2+ binding site [ion binding]; other site 469008002791 AsnC family; Region: AsnC_trans_reg; pfam01037 469008002792 DNA translocase FtsK; Provisional; Region: PRK10263 469008002793 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 469008002794 DNA translocase FtsK; Provisional; Region: PRK10263 469008002795 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 469008002796 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 469008002797 periplasmic chaperone LolA; Region: lolA; TIGR00547 469008002798 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 469008002799 recombination factor protein RarA; Reviewed; Region: PRK13342 469008002800 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 469008002801 Walker A motif; other site 469008002802 ATP binding site [chemical binding]; other site 469008002803 Walker B motif; other site 469008002804 arginine finger; other site 469008002805 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 469008002806 seryl-tRNA synthetase; Provisional; Region: PRK05431 469008002807 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 469008002808 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 469008002809 dimer interface [polypeptide binding]; other site 469008002810 active site 469008002811 motif 1; other site 469008002812 motif 2; other site 469008002813 motif 3; other site 469008002814 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 469008002815 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008002816 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 469008002817 putative [Fe4-S4] binding site [ion binding]; other site 469008002818 putative molybdopterin cofactor binding site [chemical binding]; other site 469008002819 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 469008002820 putative molybdopterin cofactor binding site; other site 469008002821 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 469008002822 4Fe-4S binding domain; Region: Fer4; pfam00037 469008002823 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 469008002824 Isochorismatase family; Region: Isochorismatase; pfam00857 469008002825 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 469008002826 catalytic triad [active] 469008002827 dimer interface [polypeptide binding]; other site 469008002828 conserved cis-peptide bond; other site 469008002829 putative MFS family transporter protein; Provisional; Region: PRK03633 469008002830 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002831 putative substrate translocation pore; other site 469008002832 Amino acid permease; Region: AA_permease_2; pfam13520 469008002833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008002834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008002835 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 469008002836 putative effector binding pocket; other site 469008002837 putative dimerization interface [polypeptide binding]; other site 469008002838 hypothetical protein; Provisional; Region: PRK09739 469008002839 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008002840 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 469008002841 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 469008002842 FeS/SAM binding site; other site 469008002843 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 469008002844 Pyruvate formate lyase 1; Region: PFL1; cd01678 469008002845 coenzyme A binding site [chemical binding]; other site 469008002846 active site 469008002847 catalytic residues [active] 469008002848 glycine loop; other site 469008002849 formate transporter; Provisional; Region: PRK10805 469008002850 uncharacterized domain; Region: TIGR00702 469008002851 YcaO-like family; Region: YcaO; pfam02624 469008002852 Predicted membrane protein [Function unknown]; Region: COG2323 469008002853 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 469008002854 homodimer interface [polypeptide binding]; other site 469008002855 substrate-cofactor binding pocket; other site 469008002856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002857 catalytic residue [active] 469008002858 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 469008002859 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 469008002860 hinge; other site 469008002861 active site 469008002862 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 469008002863 cytidylate kinase; Provisional; Region: cmk; PRK00023 469008002864 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 469008002865 CMP-binding site; other site 469008002866 The sites determining sugar specificity; other site 469008002867 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 469008002868 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 469008002869 RNA binding site [nucleotide binding]; other site 469008002870 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 469008002871 RNA binding site [nucleotide binding]; other site 469008002872 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 469008002873 RNA binding site [nucleotide binding]; other site 469008002874 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 469008002875 RNA binding site [nucleotide binding]; other site 469008002876 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 469008002877 RNA binding site [nucleotide binding]; other site 469008002878 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 469008002879 IHF dimer interface [polypeptide binding]; other site 469008002880 IHF - DNA interface [nucleotide binding]; other site 469008002881 ComEC family competence protein; Provisional; Region: PRK11539 469008002882 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 469008002883 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 469008002884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 469008002885 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 469008002886 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002887 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469008002888 Walker A/P-loop; other site 469008002889 ATP binding site [chemical binding]; other site 469008002890 Q-loop/lid; other site 469008002891 ABC transporter signature motif; other site 469008002892 Walker B; other site 469008002893 D-loop; other site 469008002894 H-loop/switch region; other site 469008002895 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 469008002896 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 469008002897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 469008002898 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 469008002899 hypothetical protein; Provisional; Region: PRK11827 469008002900 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469008002901 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469008002902 Ligand binding site; other site 469008002903 oligomer interface; other site 469008002904 hypothetical protein; Provisional; Region: PRK10593 469008002905 Uncharacterized conserved protein [Function unknown]; Region: COG1434 469008002906 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 469008002907 putative active site [active] 469008002908 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008002909 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 469008002910 S-adenosylmethionine binding site [chemical binding]; other site 469008002911 condesin subunit F; Provisional; Region: PRK05260 469008002912 condesin subunit E; Provisional; Region: PRK05256 469008002913 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 469008002914 MukB N-terminal; Region: MukB; pfam04310 469008002915 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 469008002916 murein L,D-transpeptidase; Provisional; Region: PRK10594 469008002917 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469008002918 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002919 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 469008002921 Peptidase M15; Region: Peptidase_M15_3; cl01194 469008002922 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469008002923 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 469008002924 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 469008002925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002926 homodimer interface [polypeptide binding]; other site 469008002927 catalytic residue [active] 469008002928 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008002929 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 469008002930 trimer interface [polypeptide binding]; other site 469008002931 eyelet of channel; other site 469008002932 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 469008002933 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 469008002934 putative dimer interface [polypeptide binding]; other site 469008002935 putative anticodon binding site; other site 469008002936 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 469008002937 homodimer interface [polypeptide binding]; other site 469008002938 motif 1; other site 469008002939 motif 2; other site 469008002940 active site 469008002941 motif 3; other site 469008002942 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 469008002943 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 469008002944 active site 469008002945 aminopeptidase N; Provisional; Region: pepN; PRK14015 469008002946 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 469008002947 active site 469008002948 Zn binding site [ion binding]; other site 469008002949 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 469008002950 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469008002951 Walker A/P-loop; other site 469008002952 ATP binding site [chemical binding]; other site 469008002953 Q-loop/lid; other site 469008002954 ABC transporter signature motif; other site 469008002955 Walker B; other site 469008002956 D-loop; other site 469008002957 H-loop/switch region; other site 469008002958 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008002959 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 469008002960 dimer interface [polypeptide binding]; other site 469008002961 conserved gate region; other site 469008002962 putative PBP binding loops; other site 469008002963 ABC-ATPase subunit interface; other site 469008002964 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 469008002965 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 469008002966 active site 469008002967 dimer interface [polypeptide binding]; other site 469008002968 non-prolyl cis peptide bond; other site 469008002969 insertion regions; other site 469008002970 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 469008002971 substrate binding pocket [chemical binding]; other site 469008002972 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 469008002973 membrane-bound complex binding site; other site 469008002974 hinge residues; other site 469008002975 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 469008002976 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008002977 Fimbrial protein; Region: Fimbrial; cl01416 469008002978 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008002979 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008002980 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008002981 outer membrane usher protein; Provisional; Region: PRK15193 469008002982 PapC N-terminal domain; Region: PapC_N; pfam13954 469008002983 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008002984 PapC C-terminal domain; Region: PapC_C; pfam13953 469008002985 Fimbrial protein; Region: Fimbrial; cl01416 469008002986 Fimbrial protein; Region: Fimbrial; cl01416 469008002987 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008002988 putativi pili assembly chaperone; Provisional; Region: PRK11385 469008002989 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008002990 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008002991 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 469008002992 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 469008002993 quinone interaction residues [chemical binding]; other site 469008002994 active site 469008002995 catalytic residues [active] 469008002996 FMN binding site [chemical binding]; other site 469008002997 substrate binding site [chemical binding]; other site 469008002998 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 469008002999 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 469008003000 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 469008003001 MOSC domain; Region: MOSC; pfam03473 469008003002 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 469008003003 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008003004 catalytic loop [active] 469008003005 iron binding site [ion binding]; other site 469008003006 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 469008003007 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 469008003008 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 469008003009 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 469008003010 S-adenosylmethionine binding site [chemical binding]; other site 469008003011 ABC transporter ATPase component; Reviewed; Region: PRK11147 469008003012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003014 Walker A/P-loop; other site 469008003015 Walker A/P-loop; other site 469008003016 ATP binding site [chemical binding]; other site 469008003017 ATP binding site [chemical binding]; other site 469008003018 Q-loop/lid; other site 469008003019 Q-loop/lid; other site 469008003020 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008003021 ABC transporter signature motif; other site 469008003022 Walker B; other site 469008003023 D-loop; other site 469008003024 ABC transporter; Region: ABC_tran_2; pfam12848 469008003025 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008003026 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 469008003027 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008003028 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008003029 paraquat-inducible protein B; Provisional; Region: PRK10807 469008003030 mce related protein; Region: MCE; pfam02470 469008003031 mce related protein; Region: MCE; pfam02470 469008003032 mce related protein; Region: MCE; pfam02470 469008003033 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 469008003034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 469008003035 Protein of unknown function (DUF330); Region: DUF330; pfam03886 469008003036 ribosome modulation factor; Provisional; Region: PRK14563 469008003037 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 469008003038 active site 1 [active] 469008003039 dimer interface [polypeptide binding]; other site 469008003040 active site 2 [active] 469008003041 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 469008003042 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469008003043 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 469008003044 outer membrane protein A; Reviewed; Region: PRK10808 469008003045 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 469008003046 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008003047 ligand binding site [chemical binding]; other site 469008003048 cell division inhibitor SulA; Region: sula; TIGR00623 469008003049 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 469008003050 TfoX C-terminal domain; Region: TfoX_C; pfam04994 469008003051 TIGR01666 family membrane protein; Region: YCCS 469008003052 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 469008003053 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008003054 Predicted membrane protein [Function unknown]; Region: COG3304 469008003055 Domain of unknown function (DUF307); Region: DUF307; pfam03733 469008003056 Domain of unknown function (DUF307); Region: DUF307; pfam03733 469008003057 DNA helicase IV; Provisional; Region: helD; PRK11054 469008003058 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 469008003059 Part of AAA domain; Region: AAA_19; pfam13245 469008003060 Family description; Region: UvrD_C_2; pfam13538 469008003061 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 469008003062 active site 469008003063 dimer interfaces [polypeptide binding]; other site 469008003064 catalytic residues [active] 469008003065 hypothetical protein; Provisional; Region: PRK03641 469008003066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 469008003067 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 469008003068 heat shock protein HspQ; Provisional; Region: PRK14129 469008003069 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 469008003070 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 469008003071 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 469008003072 putative RNA binding site [nucleotide binding]; other site 469008003073 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 469008003074 S-adenosylmethionine binding site [chemical binding]; other site 469008003075 Acylphosphatase; Region: Acylphosphatase; cl00551 469008003076 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 469008003077 sulfur transfer protein TusE; Provisional; Region: PRK11508 469008003078 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008003079 YccA-like proteins; Region: YccA_like; cd10433 469008003080 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 469008003081 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008003082 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 469008003083 hydrogenase 1 large subunit; Provisional; Region: PRK10170 469008003084 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 469008003085 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 469008003086 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008003087 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 469008003088 putative substrate-binding site; other site 469008003089 nickel binding site [ion binding]; other site 469008003090 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 469008003091 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 469008003092 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 469008003093 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 469008003094 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 469008003095 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 469008003096 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 469008003097 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 469008003098 catalytic core [active] 469008003099 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 469008003100 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 469008003101 Chain length determinant protein; Region: Wzz; pfam02706 469008003102 Chain length determinant protein; Region: Wzz; cl15801 469008003103 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008003104 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 469008003105 Nucleotide binding site [chemical binding]; other site 469008003106 Low molecular weight phosphatase family; Region: LMWPc; cd00115 469008003107 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 469008003108 active site 469008003109 polysaccharide export protein Wza; Provisional; Region: PRK15078 469008003110 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008003111 SLBB domain; Region: SLBB; pfam10531 469008003112 SLBB domain; Region: SLBB; pfam10531 469008003113 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 469008003114 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 469008003115 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 469008003116 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 469008003117 DNA-binding site [nucleotide binding]; DNA binding site 469008003118 RNA-binding motif; other site 469008003119 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 469008003120 DNA-binding site [nucleotide binding]; DNA binding site 469008003121 RNA-binding motif; other site 469008003122 cold shock gene; Provisional; Region: PRK09891 469008003123 GnsA/GnsB family; Region: GnsAB; pfam08178 469008003124 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 469008003125 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008003126 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008003127 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 469008003128 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 469008003129 HAMP domain; Region: HAMP; pfam00672 469008003130 dimerization interface [polypeptide binding]; other site 469008003131 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 469008003132 dimer interface [polypeptide binding]; other site 469008003133 phosphorylation site [posttranslational modification] 469008003134 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 469008003135 ATP binding site [chemical binding]; other site 469008003136 Mg2+ binding site [ion binding]; other site 469008003137 G-X-G motif; other site 469008003138 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 469008003139 active site 469008003140 phosphorylation site [posttranslational modification] 469008003141 intermolecular recognition site; other site 469008003142 dimerization interface [polypeptide binding]; other site 469008003143 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 469008003144 putative binding surface; other site 469008003145 active site 469008003146 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 469008003147 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 469008003148 putative ligand binding site [chemical binding]; other site 469008003149 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 469008003150 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 469008003151 active site 469008003152 phosphorylation site [posttranslational modification] 469008003153 intermolecular recognition site; other site 469008003154 dimerization interface [polypeptide binding]; other site 469008003155 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 469008003156 DNA binding site [nucleotide binding] 469008003157 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 469008003158 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 469008003159 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 469008003160 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 469008003161 molybdopterin cofactor binding site [chemical binding]; other site 469008003162 substrate binding site [chemical binding]; other site 469008003163 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 469008003164 molybdopterin cofactor binding site; other site 469008003165 chaperone protein TorD; Validated; Region: torD; PRK04976 469008003166 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 469008003167 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 469008003168 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 469008003169 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 469008003170 HSP70 interaction site [polypeptide binding]; other site 469008003171 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469008003172 substrate binding site [polypeptide binding]; other site 469008003173 dimer interface [polypeptide binding]; other site 469008003174 hypothetical protein; Provisional; Region: PRK09784 469008003175 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 469008003176 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 469008003177 catalytic core [active] 469008003178 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 469008003179 hypothetical protein; Provisional; Region: PRK10174 469008003180 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 469008003181 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008003182 General stress protein [General function prediction only]; Region: GsiB; COG3729 469008003183 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 469008003184 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 469008003185 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 469008003186 putative FMN binding site [chemical binding]; other site 469008003187 pyrimidine utilization protein D; Region: RutD; TIGR03611 469008003188 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 469008003189 homotrimer interaction site [polypeptide binding]; other site 469008003190 putative active site [active] 469008003191 Isochorismatase family; Region: Isochorismatase; pfam00857 469008003192 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 469008003193 catalytic triad [active] 469008003194 conserved cis-peptide bond; other site 469008003195 pyrimidine utilization protein A; Region: RutA; TIGR03612 469008003196 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 469008003197 active site 469008003198 dimer interface [polypeptide binding]; other site 469008003199 non-prolyl cis peptide bond; other site 469008003200 insertion regions; other site 469008003201 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469008003202 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 469008003203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008003204 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 469008003205 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 469008003206 Predicted transcriptional regulator [Transcription]; Region: COG3905 469008003207 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 469008003208 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 469008003209 Glutamate binding site [chemical binding]; other site 469008003210 NAD binding site [chemical binding]; other site 469008003211 catalytic residues [active] 469008003212 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 469008003213 Na binding site [ion binding]; other site 469008003214 FTR1 family protein; Region: TIGR00145 469008003215 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 469008003216 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 469008003217 Imelysin; Region: Peptidase_M75; pfam09375 469008003218 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 469008003219 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 469008003220 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 469008003221 hypothetical protein; Provisional; Region: PRK10536 469008003222 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 469008003223 N-glycosyltransferase; Provisional; Region: PRK11204 469008003224 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 469008003225 DXD motif; other site 469008003226 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 469008003227 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 469008003228 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 469008003229 putative active site [active] 469008003230 putative metal binding site [ion binding]; other site 469008003231 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 469008003232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008003233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008003234 metal binding site [ion binding]; metal-binding site 469008003235 active site 469008003236 I-site; other site 469008003237 putative transposase OrfB; Reviewed; Region: PHA02517 469008003238 HTH-like domain; Region: HTH_21; pfam13276 469008003239 Integrase core domain; Region: rve; pfam00665 469008003240 Integrase core domain; Region: rve_2; pfam13333 469008003241 Transposase; Region: HTH_Tnp_1; cl17663 469008003242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008003243 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 469008003244 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 469008003245 putative ligand binding site [chemical binding]; other site 469008003246 NAD binding site [chemical binding]; other site 469008003247 dimerization interface [polypeptide binding]; other site 469008003248 catalytic site [active] 469008003249 putative hydrolase; Validated; Region: PRK09248 469008003250 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 469008003251 active site 469008003252 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 469008003253 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 469008003254 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 469008003255 curli assembly protein CsgF; Provisional; Region: PRK10050 469008003256 curli assembly protein CsgE; Provisional; Region: PRK10386 469008003257 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 469008003258 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 469008003259 DNA binding residues [nucleotide binding] 469008003260 dimerization interface [polypeptide binding]; other site 469008003261 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 469008003262 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003263 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003264 major curlin subunit; Provisional; Region: csgA; PRK10051 469008003265 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003266 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003267 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 469008003268 Fimbrial protein; Region: Fimbrial; cl01416 469008003269 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 469008003270 putative ADP-ribose binding site [chemical binding]; other site 469008003271 putative active site [active] 469008003272 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 469008003273 PLD-like domain; Region: PLDc_2; pfam13091 469008003274 putative active site [active] 469008003275 catalytic site [active] 469008003276 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 469008003277 PLD-like domain; Region: PLDc_2; pfam13091 469008003278 putative active site [active] 469008003279 catalytic site [active] 469008003280 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 469008003281 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008003282 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 469008003283 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 469008003284 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 469008003285 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 469008003286 Ligand binding site; other site 469008003287 DXD motif; other site 469008003288 lipoprotein; Provisional; Region: PRK10175 469008003289 secY/secA suppressor protein; Provisional; Region: PRK11467 469008003290 drug efflux system protein MdtG; Provisional; Region: PRK09874 469008003291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008003292 putative substrate translocation pore; other site 469008003293 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008003294 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008003295 putative acyl-acceptor binding pocket; other site 469008003296 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 469008003297 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 469008003298 active site residue [active] 469008003299 hypothetical protein; Provisional; Region: PRK03757 469008003300 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 469008003301 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 469008003302 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 469008003303 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008003304 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 469008003305 DNA damage-inducible protein I; Provisional; Region: PRK10597 469008003306 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 469008003307 active site 469008003308 substrate binding pocket [chemical binding]; other site 469008003309 dimer interface [polypeptide binding]; other site 469008003310 lipoprotein; Provisional; Region: PRK10598 469008003311 glutaredoxin 2; Provisional; Region: PRK10387 469008003312 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 469008003313 C-terminal domain interface [polypeptide binding]; other site 469008003314 GSH binding site (G-site) [chemical binding]; other site 469008003315 catalytic residues [active] 469008003316 putative dimer interface [polypeptide binding]; other site 469008003317 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 469008003318 N-terminal domain interface [polypeptide binding]; other site 469008003319 multidrug resistance protein MdtH; Provisional; Region: PRK11646 469008003320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008003321 putative substrate translocation pore; other site 469008003322 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 469008003323 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 469008003324 hypothetical protein; Provisional; Region: PRK11239 469008003325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 469008003326 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008003327 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008003328 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008003329 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 469008003330 MviN-like protein; Region: MVIN; pfam03023 469008003331 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 469008003332 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 469008003333 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 469008003334 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 469008003335 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 469008003336 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 469008003337 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 469008003338 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 469008003339 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003341 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 469008003342 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 469008003343 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 469008003344 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 469008003345 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003346 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 469008003347 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003348 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 469008003349 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003350 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 469008003351 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 469008003352 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003353 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003354 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 469008003355 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 469008003356 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 469008003357 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 469008003358 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 469008003359 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 469008003360 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 469008003361 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 469008003362 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003363 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 469008003364 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 469008003365 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 469008003366 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 469008003367 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 469008003368 homodimer interface [polypeptide binding]; other site 469008003369 oligonucleotide binding site [chemical binding]; other site 469008003370 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 469008003371 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 469008003372 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 469008003373 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 469008003374 RNA binding surface [nucleotide binding]; other site 469008003375 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008003376 active site 469008003377 Maf-like protein; Region: Maf; pfam02545 469008003378 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 469008003379 active site 469008003380 dimer interface [polypeptide binding]; other site 469008003381 hypothetical protein; Provisional; Region: PRK11193 469008003382 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 469008003383 putative phosphate acyltransferase; Provisional; Region: PRK05331 469008003384 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 469008003385 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 469008003386 dimer interface [polypeptide binding]; other site 469008003387 active site 469008003388 CoA binding pocket [chemical binding]; other site 469008003389 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 469008003390 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 469008003391 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 469008003392 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 469008003393 NAD(P) binding site [chemical binding]; other site 469008003394 homotetramer interface [polypeptide binding]; other site 469008003395 homodimer interface [polypeptide binding]; other site 469008003396 active site 469008003397 acyl carrier protein; Provisional; Region: acpP; PRK00982 469008003398 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 469008003399 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 469008003400 dimer interface [polypeptide binding]; other site 469008003401 active site 469008003402 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469008003403 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 469008003404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008003405 catalytic residue [active] 469008003406 conserved hypothetical protein, YceG family; Region: TIGR00247 469008003407 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 469008003408 dimerization interface [polypeptide binding]; other site 469008003409 thymidylate kinase; Validated; Region: tmk; PRK00698 469008003410 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 469008003411 TMP-binding site; other site 469008003412 ATP-binding site [chemical binding]; other site 469008003413 DNA polymerase III subunit delta'; Validated; Region: PRK07993 469008003414 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 469008003415 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008003416 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469008003417 active site 469008003418 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 469008003419 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008003420 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 469008003421 active site turn [active] 469008003422 phosphorylation site [posttranslational modification] 469008003423 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 469008003424 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 469008003425 N-terminal plug; other site 469008003426 ligand-binding site [chemical binding]; other site 469008003427 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 469008003428 nucleotide binding site/active site [active] 469008003429 HIT family signature motif; other site 469008003430 catalytic residue [active] 469008003431 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 469008003432 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 469008003433 putative dimer interface [polypeptide binding]; other site 469008003434 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 469008003435 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 469008003436 thiamine kinase; Region: ycfN_thiK; TIGR02721 469008003437 active site 469008003438 substrate binding site [chemical binding]; other site 469008003439 ATP binding site [chemical binding]; other site 469008003440 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 469008003441 beta-hexosaminidase; Provisional; Region: PRK05337 469008003442 hypothetical protein; Provisional; Region: PRK04940 469008003443 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 469008003444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008003445 hypothetical protein; Provisional; Region: PRK11280 469008003446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008003447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008003448 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008003449 L,D-transpeptidase; Provisional; Region: PRK10260 469008003450 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008003451 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008003452 transcription-repair coupling factor; Provisional; Region: PRK10689 469008003453 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 469008003454 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 469008003455 ATP binding site [chemical binding]; other site 469008003456 putative Mg++ binding site [ion binding]; other site 469008003457 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 469008003458 nucleotide binding region [chemical binding]; other site 469008003459 ATP-binding site [chemical binding]; other site 469008003460 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 469008003461 Predicted membrane protein [Function unknown]; Region: COG4763 469008003462 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008003463 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 469008003464 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008003465 FtsX-like permease family; Region: FtsX; pfam02687 469008003466 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 469008003467 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008003468 Walker A/P-loop; other site 469008003469 ATP binding site [chemical binding]; other site 469008003470 Q-loop/lid; other site 469008003471 ABC transporter signature motif; other site 469008003472 Walker B; other site 469008003473 D-loop; other site 469008003474 H-loop/switch region; other site 469008003475 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 469008003476 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008003477 FtsX-like permease family; Region: FtsX; pfam02687 469008003478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003479 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003480 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003481 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003482 NAD-dependent deacetylase; Provisional; Region: PRK00481 469008003483 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 469008003484 NAD+ binding site [chemical binding]; other site 469008003485 substrate binding site [chemical binding]; other site 469008003486 Zn binding site [ion binding]; other site 469008003487 Repair protein; Region: Repair_PSII; cl01535 469008003488 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 469008003489 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 469008003490 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 469008003491 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008003492 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 469008003493 dimer interface [polypeptide binding]; other site 469008003494 conserved gate region; other site 469008003495 putative PBP binding loops; other site 469008003496 ABC-ATPase subunit interface; other site 469008003497 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008003498 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 469008003499 dimer interface [polypeptide binding]; other site 469008003500 conserved gate region; other site 469008003501 putative PBP binding loops; other site 469008003502 ABC-ATPase subunit interface; other site 469008003503 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 469008003504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003505 Walker A/P-loop; other site 469008003506 ATP binding site [chemical binding]; other site 469008003507 Q-loop/lid; other site 469008003508 ABC transporter signature motif; other site 469008003509 Walker B; other site 469008003510 D-loop; other site 469008003511 H-loop/switch region; other site 469008003512 TOBE domain; Region: TOBE_2; pfam08402 469008003513 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 469008003514 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 469008003515 metal binding site [ion binding]; metal-binding site 469008003516 dimer interface [polypeptide binding]; other site 469008003517 Uncharacterized conserved protein [Function unknown]; Region: COG2850 469008003518 Cupin-like domain; Region: Cupin_8; pfam13621 469008003519 sensor protein PhoQ; Provisional; Region: PRK10815 469008003520 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 469008003521 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 469008003522 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 469008003523 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 469008003524 ATP binding site [chemical binding]; other site 469008003525 Mg2+ binding site [ion binding]; other site 469008003526 G-X-G motif; other site 469008003527 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 469008003528 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 469008003529 active site 469008003530 phosphorylation site [posttranslational modification] 469008003531 intermolecular recognition site; other site 469008003532 dimerization interface [polypeptide binding]; other site 469008003533 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 469008003534 DNA binding site [nucleotide binding] 469008003535 adenylosuccinate lyase; Provisional; Region: PRK09285 469008003536 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 469008003537 tetramer interface [polypeptide binding]; other site 469008003538 active site 469008003539 putative lysogenization regulator; Reviewed; Region: PRK00218 469008003540 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 469008003541 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 469008003542 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 469008003543 nudix motif; other site 469008003544 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 469008003545 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 469008003546 probable active site [active] 469008003547 isocitrate dehydrogenase; Validated; Region: PRK07362 469008003548 isocitrate dehydrogenase; Reviewed; Region: PRK07006 469008003549 anti-adapter protein IraM; Provisional; Region: PRK09919 469008003550 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 469008003551 transcriptional regulator MirA; Provisional; Region: PRK15043 469008003552 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 469008003553 DNA binding residues [nucleotide binding] 469008003554 Sensors of blue-light using FAD; Region: BLUF; smart01034 469008003555 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 469008003556 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 469008003557 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 469008003558 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008003559 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 469008003560 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008003561 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 469008003562 cell division inhibitor MinD; Provisional; Region: PRK10818 469008003563 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 469008003564 Switch I; other site 469008003565 Switch II; other site 469008003566 septum formation inhibitor; Reviewed; Region: minC; PRK03511 469008003567 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 469008003568 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 469008003569 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 469008003570 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 469008003571 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 469008003572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 469008003573 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 469008003574 hypothetical protein; Provisional; Region: PRK10691 469008003575 hypothetical protein; Provisional; Region: PRK05170 469008003576 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 469008003577 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 469008003578 Catalytic site [active] 469008003579 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 469008003580 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 469008003581 active site 469008003582 DNA binding site [nucleotide binding] 469008003583 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 469008003584 disulfide bond formation protein B; Provisional; Region: PRK01749 469008003585 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 469008003586 transmembrane helices; other site 469008003587 fatty acid metabolism regulator; Provisional; Region: PRK04984 469008003588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008003589 DNA-binding site [nucleotide binding]; DNA binding site 469008003590 FadR C-terminal domain; Region: FadR_C; pfam07840 469008003591 SpoVR family protein; Provisional; Region: PRK11767 469008003592 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 469008003593 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 469008003594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008003595 alanine racemase; Reviewed; Region: dadX; PRK03646 469008003596 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 469008003597 active site 469008003598 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008003599 substrate binding site [chemical binding]; other site 469008003600 catalytic residues [active] 469008003601 dimer interface [polypeptide binding]; other site 469008003602 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 469008003603 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469008003604 TrkA-C domain; Region: TrkA_C; pfam02080 469008003605 Transporter associated domain; Region: CorC_HlyC; smart01091 469008003606 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 469008003607 dimer interface [polypeptide binding]; other site 469008003608 catalytic triad [active] 469008003609 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 469008003610 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 469008003611 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008003612 catalytic residue [active] 469008003613 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 469008003614 Flagellar regulator YcgR; Region: YcgR; pfam07317 469008003615 PilZ domain; Region: PilZ; pfam07238 469008003616 hypothetical protein; Provisional; Region: PRK10457 469008003617 trehalase; Provisional; Region: treA; PRK13271 469008003618 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 469008003619 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 469008003620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 469008003621 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 469008003622 dimerization domain swap beta strand [polypeptide binding]; other site 469008003623 regulatory protein interface [polypeptide binding]; other site 469008003624 active site 469008003625 regulatory phosphorylation site [posttranslational modification]; other site 469008003626 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008003627 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008003628 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 469008003629 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 469008003630 Dak1 domain; Region: Dak1; pfam02733 469008003631 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 469008003632 PAS domain; Region: PAS; smart00091 469008003633 putative active site [active] 469008003634 heme pocket [chemical binding]; other site 469008003635 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 469008003636 Walker A motif; other site 469008003637 ATP binding site [chemical binding]; other site 469008003638 Walker B motif; other site 469008003639 arginine finger; other site 469008003640 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008003641 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 469008003642 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008003643 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008003644 GTP-binding protein YchF; Reviewed; Region: PRK09601 469008003645 YchF GTPase; Region: YchF; cd01900 469008003646 G1 box; other site 469008003647 GTP/Mg2+ binding site [chemical binding]; other site 469008003648 Switch I region; other site 469008003649 G2 box; other site 469008003650 Switch II region; other site 469008003651 G3 box; other site 469008003652 G4 box; other site 469008003653 G5 box; other site 469008003654 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 469008003655 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 469008003656 putative active site [active] 469008003657 catalytic residue [active] 469008003658 hypothetical protein; Provisional; Region: PRK10692 469008003659 putative transporter; Provisional; Region: PRK11660 469008003660 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 469008003661 Sulfate transporter family; Region: Sulfate_transp; pfam00916 469008003662 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 469008003663 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 469008003664 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 469008003665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008003666 active site 469008003667 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 469008003668 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469008003669 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 469008003670 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 469008003671 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 469008003672 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 469008003673 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 469008003674 tRNA; other site 469008003675 putative tRNA binding site [nucleotide binding]; other site 469008003676 putative NADP binding site [chemical binding]; other site 469008003677 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 469008003678 peptide chain release factor 1; Validated; Region: prfA; PRK00591 469008003679 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469008003680 RF-1 domain; Region: RF-1; pfam00472 469008003681 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 469008003682 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 469008003683 hypothetical protein; Provisional; Region: PRK10278 469008003684 hypothetical protein; Provisional; Region: PRK10941 469008003685 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 469008003686 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 469008003687 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008003688 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003689 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003690 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003691 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 469008003692 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008003693 cation transport regulator; Reviewed; Region: chaB; PRK09582 469008003694 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 469008003695 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 469008003696 putative active site pocket [active] 469008003697 dimerization interface [polypeptide binding]; other site 469008003698 putative catalytic residue [active] 469008003699 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 469008003700 putative invasin; Provisional; Region: PRK10177 469008003701 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008003702 transcriptional regulator NarL; Provisional; Region: PRK10651 469008003703 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 469008003704 active site 469008003705 phosphorylation site [posttranslational modification] 469008003706 intermolecular recognition site; other site 469008003707 dimerization interface [polypeptide binding]; other site 469008003708 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 469008003709 DNA binding residues [nucleotide binding] 469008003710 dimerization interface [polypeptide binding]; other site 469008003711 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 469008003712 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 469008003713 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 469008003714 dimerization interface [polypeptide binding]; other site 469008003715 Histidine kinase; Region: HisKA_3; pfam07730 469008003716 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 469008003717 ATP binding site [chemical binding]; other site 469008003718 Mg2+ binding site [ion binding]; other site 469008003719 G-X-G motif; other site 469008003720 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 469008003721 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 469008003722 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 469008003723 [4Fe-4S] binding site [ion binding]; other site 469008003724 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 469008003725 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 469008003726 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 469008003727 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 469008003728 molybdopterin cofactor binding site; other site 469008003729 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 469008003730 4Fe-4S binding domain; Region: Fer4; cl02805 469008003731 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 469008003732 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 469008003733 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 469008003734 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 469008003735 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 469008003736 putative active site [active] 469008003737 putative substrate binding site [chemical binding]; other site 469008003738 putative cosubstrate binding site; other site 469008003739 catalytic site [active] 469008003740 SEC-C motif; Region: SEC-C; pfam02810 469008003741 hypothetical protein; Provisional; Region: PRK04233 469008003742 hypothetical protein; Provisional; Region: PRK10279 469008003743 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 469008003744 active site 469008003745 nucleophile elbow; other site 469008003746 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 469008003747 active site 469008003748 response regulator of RpoS; Provisional; Region: PRK10693 469008003749 phosphorylation site [posttranslational modification] 469008003750 intermolecular recognition site; other site 469008003751 dimerization interface [polypeptide binding]; other site 469008003752 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469008003753 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 469008003754 active site 469008003755 tetramer interface; other site 469008003756 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 469008003757 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 469008003758 thymidine kinase; Provisional; Region: PRK04296 469008003759 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 469008003760 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 469008003761 putative catalytic cysteine [active] 469008003762 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 469008003763 putative active site [active] 469008003764 metal binding site [ion binding]; metal-binding site 469008003765 hypothetical protein; Provisional; Region: PRK11111 469008003766 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 469008003767 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008003768 peptide binding site [polypeptide binding]; other site 469008003769 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 469008003770 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 469008003771 dimer interface [polypeptide binding]; other site 469008003772 conserved gate region; other site 469008003773 putative PBP binding loops; other site 469008003774 ABC-ATPase subunit interface; other site 469008003775 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 469008003776 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008003777 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 469008003778 dimer interface [polypeptide binding]; other site 469008003779 conserved gate region; other site 469008003780 putative PBP binding loops; other site 469008003781 ABC-ATPase subunit interface; other site 469008003782 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 469008003783 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003784 Walker A/P-loop; other site 469008003785 ATP binding site [chemical binding]; other site 469008003786 Q-loop/lid; other site 469008003787 ABC transporter signature motif; other site 469008003788 Walker B; other site 469008003789 D-loop; other site 469008003790 H-loop/switch region; other site 469008003791 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008003792 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 469008003793 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003794 Walker A/P-loop; other site 469008003795 ATP binding site [chemical binding]; other site 469008003796 Q-loop/lid; other site 469008003797 ABC transporter signature motif; other site 469008003798 Walker B; other site 469008003799 D-loop; other site 469008003800 H-loop/switch region; other site 469008003801 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008003802 dsDNA-mimic protein; Reviewed; Region: PRK05094 469008003803 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 469008003804 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 469008003805 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 469008003806 putative active site [active] 469008003807 catalytic site [active] 469008003808 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 469008003809 putative active site [active] 469008003810 catalytic site [active] 469008003811 voltage-gated potassium channel; Provisional; Region: PRK10537 469008003812 Ion channel; Region: Ion_trans_2; pfam07885 469008003813 TrkA-N domain; Region: TrkA_N; pfam02254 469008003814 YciI-like protein; Reviewed; Region: PRK11370 469008003815 transport protein TonB; Provisional; Region: PRK10819 469008003816 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469008003817 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 469008003818 intracellular septation protein A; Reviewed; Region: PRK00259 469008003819 hypothetical protein; Provisional; Region: PRK02868 469008003820 outer membrane protein W; Provisional; Region: PRK10959 469008003821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 469008003822 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 469008003823 dimerization interface [polypeptide binding]; other site 469008003824 metal binding site [ion binding]; metal-binding site 469008003825 General stress protein [General function prediction only]; Region: GsiB; COG3729 469008003826 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 469008003827 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 469008003828 substrate binding site [chemical binding]; other site 469008003829 active site 469008003830 catalytic residues [active] 469008003831 heterodimer interface [polypeptide binding]; other site 469008003832 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 469008003833 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 469008003834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008003835 catalytic residue [active] 469008003836 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 469008003837 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 469008003838 active site 469008003839 ribulose/triose binding site [chemical binding]; other site 469008003840 phosphate binding site [ion binding]; other site 469008003841 substrate (anthranilate) binding pocket [chemical binding]; other site 469008003842 product (indole) binding pocket [chemical binding]; other site 469008003843 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 469008003844 active site 469008003845 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 469008003846 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469008003847 glutamine binding [chemical binding]; other site 469008003848 catalytic triad [active] 469008003849 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008003850 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 469008003851 anthranilate synthase component I; Provisional; Region: PRK13564 469008003852 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469008003853 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 469008003854 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 469008003855 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 469008003856 active site 469008003857 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 469008003858 hypothetical protein; Provisional; Region: PRK11630 469008003859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003860 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003861 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003862 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003863 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 469008003864 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 469008003865 RNA binding surface [nucleotide binding]; other site 469008003866 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 469008003867 probable active site [active] 469008003868 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 469008003869 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 469008003870 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 469008003871 homodimer interface [polypeptide binding]; other site 469008003872 Walker A motif; other site 469008003873 ATP binding site [chemical binding]; other site 469008003874 hydroxycobalamin binding site [chemical binding]; other site 469008003875 Walker B motif; other site 469008003876 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 469008003877 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 469008003878 NADP binding site [chemical binding]; other site 469008003879 homodimer interface [polypeptide binding]; other site 469008003880 active site 469008003881 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 469008003882 putative inner membrane peptidase; Provisional; Region: PRK11778 469008003883 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469008003884 tandem repeat interface [polypeptide binding]; other site 469008003885 oligomer interface [polypeptide binding]; other site 469008003886 active site residues [active] 469008003887 hypothetical protein; Provisional; Region: PRK11037 469008003888 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 469008003889 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 469008003890 active site 469008003891 interdomain interaction site; other site 469008003892 putative metal-binding site [ion binding]; other site 469008003893 nucleotide binding site [chemical binding]; other site 469008003894 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 469008003895 domain I; other site 469008003896 DNA binding groove [nucleotide binding] 469008003897 phosphate binding site [ion binding]; other site 469008003898 domain II; other site 469008003899 domain III; other site 469008003900 nucleotide binding site [chemical binding]; other site 469008003901 catalytic site [active] 469008003902 domain IV; other site 469008003903 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008003904 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008003905 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 469008003906 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 469008003907 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 469008003908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008003909 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 469008003910 substrate binding site [chemical binding]; other site 469008003911 putative dimerization interface [polypeptide binding]; other site 469008003912 aconitate hydratase; Validated; Region: PRK09277 469008003913 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 469008003914 substrate binding site [chemical binding]; other site 469008003915 ligand binding site [chemical binding]; other site 469008003916 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 469008003917 substrate binding site [chemical binding]; other site 469008003918 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 469008003919 dimerization interface [polypeptide binding]; other site 469008003920 active site 469008003921 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008003922 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 469008003923 active site 469008003924 Predicted membrane protein [Function unknown]; Region: COG3771 469008003925 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 469008003926 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 469008003927 TPR motif; other site 469008003928 binding surface 469008003929 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 469008003930 binding surface 469008003931 TPR motif; other site 469008003932 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 469008003933 active site 469008003934 dimer interface [polypeptide binding]; other site 469008003935 translation initiation factor Sui1; Validated; Region: PRK06824 469008003936 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 469008003937 putative rRNA binding site [nucleotide binding]; other site 469008003938 lipoprotein; Provisional; Region: PRK10540 469008003939 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008003940 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008003941 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008003942 RNase II stability modulator; Provisional; Region: PRK10060 469008003943 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 469008003944 putative active site [active] 469008003945 heme pocket [chemical binding]; other site 469008003946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008003947 metal binding site [ion binding]; metal-binding site 469008003948 active site 469008003949 I-site; other site 469008003950 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 469008003951 exoribonuclease II; Provisional; Region: PRK05054 469008003952 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469008003953 RNB domain; Region: RNB; pfam00773 469008003954 S1 RNA binding domain; Region: S1; pfam00575 469008003955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 469008003956 Uncharacterized conserved protein [Function unknown]; Region: COG2128 469008003957 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 469008003958 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 469008003959 NAD binding site [chemical binding]; other site 469008003960 homotetramer interface [polypeptide binding]; other site 469008003961 homodimer interface [polypeptide binding]; other site 469008003962 substrate binding site [chemical binding]; other site 469008003963 active site 469008003964 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 469008003965 putative active site [active] 469008003966 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 469008003967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003968 Walker A/P-loop; other site 469008003969 ATP binding site [chemical binding]; other site 469008003970 Q-loop/lid; other site 469008003971 ABC transporter signature motif; other site 469008003972 Walker B; other site 469008003973 D-loop; other site 469008003974 H-loop/switch region; other site 469008003975 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 469008003976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003977 Walker A/P-loop; other site 469008003978 ATP binding site [chemical binding]; other site 469008003979 Q-loop/lid; other site 469008003980 ABC transporter signature motif; other site 469008003981 Walker B; other site 469008003982 D-loop; other site 469008003983 H-loop/switch region; other site 469008003984 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008003985 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 469008003986 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008003987 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 469008003988 dimer interface [polypeptide binding]; other site 469008003989 conserved gate region; other site 469008003990 putative PBP binding loops; other site 469008003991 ABC-ATPase subunit interface; other site 469008003992 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 469008003993 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 469008003994 dimer interface [polypeptide binding]; other site 469008003995 conserved gate region; other site 469008003996 putative PBP binding loops; other site 469008003997 ABC-ATPase subunit interface; other site 469008003998 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 469008003999 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 469008004000 peptide binding site [polypeptide binding]; other site 469008004001 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 469008004002 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469008004003 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 469008004004 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469008004005 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 469008004006 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469008004007 catalytic triad [active] 469008004008 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469008004009 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 469008004010 non-specific DNA binding site [nucleotide binding]; other site 469008004011 salt bridge; other site 469008004012 sequence-specific DNA binding site [nucleotide binding]; other site 469008004013 Cupin domain; Region: Cupin_2; pfam07883 469008004014 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 469008004015 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 469008004016 NAD(P) binding site [chemical binding]; other site 469008004017 catalytic residues [active] 469008004018 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 469008004019 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 469008004020 4-aminobutyrate transaminase; Provisional; Region: PRK09792 469008004021 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 469008004022 inhibitor-cofactor binding pocket; inhibition site 469008004023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004024 catalytic residue [active] 469008004025 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 469008004026 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 469008004027 Walker A motif; other site 469008004028 ATP binding site [chemical binding]; other site 469008004029 Walker B motif; other site 469008004030 arginine finger; other site 469008004031 phage shock protein PspA; Provisional; Region: PRK10698 469008004032 phage shock protein B; Provisional; Region: pspB; PRK09458 469008004033 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 469008004034 phage shock protein C; Region: phageshock_pspC; TIGR02978 469008004035 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 469008004036 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 469008004037 active site residue [active] 469008004038 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 469008004039 sucrose phosphorylase; Provisional; Region: PRK13840 469008004040 active site 469008004041 homodimer interface [polypeptide binding]; other site 469008004042 catalytic site [active] 469008004043 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 469008004044 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 469008004045 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469008004046 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 469008004047 dimer interface [polypeptide binding]; other site 469008004048 conserved gate region; other site 469008004049 putative PBP binding loops; other site 469008004050 ABC-ATPase subunit interface; other site 469008004051 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008004052 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 469008004053 dimer interface [polypeptide binding]; other site 469008004054 conserved gate region; other site 469008004055 putative PBP binding loops; other site 469008004056 ABC-ATPase subunit interface; other site 469008004057 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008004058 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 469008004059 putative NAD(P) binding site [chemical binding]; other site 469008004060 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 469008004061 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008004062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008004063 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008004064 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 469008004065 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 469008004066 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 469008004067 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 469008004068 beta-phosphoglucomutase; Region: bPGM; TIGR01990 469008004069 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 469008004070 motif II; other site 469008004071 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 469008004072 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008004073 Walker A/P-loop; other site 469008004074 ATP binding site [chemical binding]; other site 469008004075 Q-loop/lid; other site 469008004076 ABC transporter signature motif; other site 469008004077 Walker B; other site 469008004078 D-loop; other site 469008004079 H-loop/switch region; other site 469008004080 TOBE domain; Region: TOBE_2; pfam08402 469008004081 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 469008004082 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008004083 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008004084 DNA binding site [nucleotide binding] 469008004085 domain linker motif; other site 469008004086 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 469008004087 putative dimerization interface [polypeptide binding]; other site 469008004088 putative ligand binding site [chemical binding]; other site 469008004089 Predicted ATPase [General function prediction only]; Region: COG3106 469008004090 hypothetical protein; Provisional; Region: PRK05415 469008004091 TIGR01620 family protein; Region: hyp_HI0043 469008004092 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 469008004093 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 469008004094 putative aromatic amino acid binding site; other site 469008004095 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 469008004096 Walker A motif; other site 469008004097 ATP binding site [chemical binding]; other site 469008004098 Walker B motif; other site 469008004099 arginine finger; other site 469008004100 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 469008004101 dimer interface [polypeptide binding]; other site 469008004102 catalytic triad [active] 469008004103 peroxidatic and resolving cysteines [active] 469008004104 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 469008004105 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 469008004106 active site 469008004107 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 469008004108 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 469008004109 putative active site [active] 469008004110 Zn binding site [ion binding]; other site 469008004111 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 469008004112 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008004113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008004114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004115 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 469008004116 putative effector binding pocket; other site 469008004117 putative dimerization interface [polypeptide binding]; other site 469008004118 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 469008004119 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008004120 peptide binding site [polypeptide binding]; other site 469008004121 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 469008004122 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008004123 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 469008004124 universal stress protein UspE; Provisional; Region: PRK11175 469008004125 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 469008004126 Ligand Binding Site [chemical binding]; other site 469008004127 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 469008004128 Ligand Binding Site [chemical binding]; other site 469008004129 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 469008004130 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469008004131 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 469008004132 DNA binding site [nucleotide binding] 469008004133 active site 469008004134 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 469008004135 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 469008004136 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 469008004137 amidohydrolase; Region: amidohydrolases; TIGR01891 469008004138 putative metal binding site [ion binding]; other site 469008004139 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 469008004140 amidohydrolase; Region: amidohydrolases; TIGR01891 469008004141 putative metal binding site [ion binding]; other site 469008004142 dimer interface [polypeptide binding]; other site 469008004143 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 469008004144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004145 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 469008004146 putative substrate binding pocket [chemical binding]; other site 469008004147 putative dimerization interface [polypeptide binding]; other site 469008004148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 469008004149 Smr domain; Region: Smr; pfam01713 469008004150 PAS domain S-box; Region: sensory_box; TIGR00229 469008004151 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 469008004152 putative active site [active] 469008004153 heme pocket [chemical binding]; other site 469008004154 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004156 metal binding site [ion binding]; metal-binding site 469008004157 active site 469008004158 I-site; other site 469008004159 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469008004160 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 469008004161 Cl binding site [ion binding]; other site 469008004162 oligomer interface [polypeptide binding]; other site 469008004163 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 469008004164 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 469008004165 ATP binding site [chemical binding]; other site 469008004166 Mg++ binding site [ion binding]; other site 469008004167 motif III; other site 469008004168 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 469008004169 nucleotide binding region [chemical binding]; other site 469008004170 ATP-binding site [chemical binding]; other site 469008004171 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 469008004172 putative RNA binding site [nucleotide binding]; other site 469008004173 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 469008004174 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 469008004175 Ligand Binding Site [chemical binding]; other site 469008004176 cryptic prophage, Rac-like 469008004177 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 469008004178 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469008004179 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 469008004180 Int/Topo IB signature motif; other site 469008004181 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 469008004182 hypothetical protein; Provisional; Region: PRK09750 469008004183 restriction alleviation and modification protein; Reviewed; Region: lar; PRK09710 469008004184 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 469008004185 hypothetical protein; Reviewed; Region: PRK09790 469008004186 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 469008004187 Superinfection exclusion protein B; Region: SieB; pfam14163 469008004188 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 469008004189 Lysis protein S; Region: Lysis_S; pfam04971 469008004190 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 469008004191 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 469008004192 catalytic residues [active] 469008004193 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008004194 Cation transport protein; Region: TrkH; cl17365 469008004195 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469008004196 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 469008004197 ParB-like nuclease domain; Region: ParBc; pfam02195 469008004198 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469008004199 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 469008004200 catalytic residues [active] 469008004201 catalytic nucleophile [active] 469008004202 Presynaptic Site I dimer interface [polypeptide binding]; other site 469008004203 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469008004204 Synaptic Flat tetramer interface [polypeptide binding]; other site 469008004205 Synaptic Site I dimer interface [polypeptide binding]; other site 469008004206 DNA binding site [nucleotide binding] 469008004207 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 469008004208 DNA-binding interface [nucleotide binding]; DNA binding site 469008004209 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 469008004210 Ligand Binding Site [chemical binding]; other site 469008004211 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008004212 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 469008004213 trimer interface [polypeptide binding]; other site 469008004214 eyelet of channel; other site 469008004215 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469008004216 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 469008004217 dimer interface [polypeptide binding]; other site 469008004218 PYR/PP interface [polypeptide binding]; other site 469008004219 TPP binding site [chemical binding]; other site 469008004220 substrate binding site [chemical binding]; other site 469008004221 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469008004222 Domain of unknown function; Region: EKR; smart00890 469008004223 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008004224 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 469008004225 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 469008004226 TPP-binding site [chemical binding]; other site 469008004227 dimer interface [polypeptide binding]; other site 469008004228 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 469008004229 Domain of unknown function (DUF333); Region: DUF333; pfam03891 469008004230 heat-inducible protein; Provisional; Region: PRK10449 469008004231 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 469008004232 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469008004233 putative ligand binding site [chemical binding]; other site 469008004234 putative NAD binding site [chemical binding]; other site 469008004235 catalytic site [active] 469008004236 hypothetical protein; Provisional; Region: PRK10695 469008004237 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 469008004238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 469008004239 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 469008004240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004241 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 469008004242 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008004243 NAD(P) binding site [chemical binding]; other site 469008004244 catalytic residues [active] 469008004245 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 469008004246 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 469008004247 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 469008004248 Transposase; Region: HTH_Tnp_1; cl17663 469008004249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004250 putative transposase OrfB; Reviewed; Region: PHA02517 469008004251 HTH-like domain; Region: HTH_21; pfam13276 469008004252 Integrase core domain; Region: rve; pfam00665 469008004253 Integrase core domain; Region: rve_2; pfam13333 469008004254 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 469008004255 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008004256 active site 469008004257 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 469008004258 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 469008004259 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469008004260 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 469008004261 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469008004262 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 469008004263 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469008004264 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 469008004265 S-adenosylmethionine binding site [chemical binding]; other site 469008004266 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 469008004267 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008004268 active site 469008004269 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 469008004270 active site 469008004271 catalytic residues [active] 469008004272 azoreductase; Reviewed; Region: PRK00170 469008004273 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008004274 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 469008004275 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 469008004276 ATP binding site [chemical binding]; other site 469008004277 putative Mg++ binding site [ion binding]; other site 469008004278 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 469008004279 nucleotide binding region [chemical binding]; other site 469008004280 ATP-binding site [chemical binding]; other site 469008004281 Helicase associated domain (HA2); Region: HA2; pfam04408 469008004282 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 469008004283 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 469008004284 Uncharacterized conserved protein [Function unknown]; Region: COG1434 469008004285 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 469008004286 putative active site [active] 469008004287 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 469008004288 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008004289 NAD binding site [chemical binding]; other site 469008004290 catalytic residues [active] 469008004291 substrate binding site [chemical binding]; other site 469008004292 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 469008004293 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008004294 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008004295 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008004296 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008004297 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008004298 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008004299 cytochrome b561; Provisional; Region: PRK11513 469008004300 hypothetical protein; Provisional; Region: PRK10040 469008004301 small toxic polypeptide; Provisional; Region: PRK09738 469008004302 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 469008004303 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008004304 dimer interface [polypeptide binding]; other site 469008004305 ligand binding site [chemical binding]; other site 469008004306 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 469008004307 dimerization interface [polypeptide binding]; other site 469008004308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008004309 dimer interface [polypeptide binding]; other site 469008004310 putative CheW interface [polypeptide binding]; other site 469008004311 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 469008004312 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004313 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 469008004314 dimerization interface [polypeptide binding]; other site 469008004315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 469008004316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 469008004317 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 469008004318 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 469008004319 hypothetical protein; Provisional; Region: PRK11415 469008004320 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 469008004321 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008004322 Coenzyme A binding pocket [chemical binding]; other site 469008004323 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 469008004324 putative trimer interface [polypeptide binding]; other site 469008004325 putative CoA binding site [chemical binding]; other site 469008004326 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 469008004327 putative trimer interface [polypeptide binding]; other site 469008004328 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 469008004329 putative CoA binding site [chemical binding]; other site 469008004330 putative trimer interface [polypeptide binding]; other site 469008004331 putative CoA binding site [chemical binding]; other site 469008004332 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 469008004333 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 469008004334 gating phenylalanine in ion channel; other site 469008004335 tellurite resistance protein TehB; Provisional; Region: PRK11207 469008004336 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 469008004337 S-adenosylmethionine binding site [chemical binding]; other site 469008004338 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 469008004339 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469008004340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469008004341 Probable transposase; Region: OrfB_IS605; pfam01385 469008004342 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469008004343 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 469008004344 benzoate transporter; Region: benE; TIGR00843 469008004345 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 469008004346 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 469008004347 non-specific DNA binding site [nucleotide binding]; other site 469008004348 salt bridge; other site 469008004349 sequence-specific DNA binding site [nucleotide binding]; other site 469008004350 Cupin domain; Region: Cupin_2; pfam07883 469008004351 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008004352 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 469008004353 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008004354 Collagenase; Region: DUF3656; pfam12392 469008004355 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 469008004356 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 469008004357 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 469008004358 sequence-specific DNA binding site [nucleotide binding]; other site 469008004359 salt bridge; other site 469008004360 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 469008004361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004362 DNA-binding site [nucleotide binding]; DNA binding site 469008004363 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 469008004364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004365 homodimer interface [polypeptide binding]; other site 469008004366 catalytic residue [active] 469008004367 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 469008004368 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469008004369 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469008004370 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008004371 Walker A/P-loop; other site 469008004372 ATP binding site [chemical binding]; other site 469008004373 Q-loop/lid; other site 469008004374 ABC transporter signature motif; other site 469008004375 Walker B; other site 469008004376 D-loop; other site 469008004377 H-loop/switch region; other site 469008004378 TOBE domain; Region: TOBE_2; pfam08402 469008004379 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 469008004380 dimer interface [polypeptide binding]; other site 469008004381 conserved gate region; other site 469008004382 putative PBP binding loops; other site 469008004383 ABC-ATPase subunit interface; other site 469008004384 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008004385 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 469008004386 ABC-ATPase subunit interface; other site 469008004387 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 469008004388 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 469008004389 tetrameric interface [polypeptide binding]; other site 469008004390 NAD binding site [chemical binding]; other site 469008004391 catalytic residues [active] 469008004392 substrate binding site [chemical binding]; other site 469008004393 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 469008004394 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 469008004395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 469008004396 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 469008004397 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469008004398 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 469008004399 Prostaglandin dehydrogenases; Region: PGDH; cd05288 469008004400 NAD(P) binding site [chemical binding]; other site 469008004401 substrate binding site [chemical binding]; other site 469008004402 dimer interface [polypeptide binding]; other site 469008004403 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 469008004404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004405 DNA-binding site [nucleotide binding]; DNA binding site 469008004406 FCD domain; Region: FCD; pfam07729 469008004407 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469008004408 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 469008004409 N-terminal plug; other site 469008004410 ligand-binding site [chemical binding]; other site 469008004411 PQQ-like domain; Region: PQQ_2; pfam13360 469008004412 L-asparagine permease; Provisional; Region: PRK15049 469008004413 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 469008004414 C-terminal domain interface [polypeptide binding]; other site 469008004415 GSH binding site (G-site) [chemical binding]; other site 469008004416 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 469008004417 dimer interface [polypeptide binding]; other site 469008004418 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 469008004419 dimer interface [polypeptide binding]; other site 469008004420 N-terminal domain interface [polypeptide binding]; other site 469008004421 substrate binding pocket (H-site) [chemical binding]; other site 469008004422 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 469008004423 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008004424 RHS Repeat; Region: RHS_repeat; pfam05593 469008004425 RHS Repeat; Region: RHS_repeat; pfam05593 469008004426 RHS Repeat; Region: RHS_repeat; pfam05593 469008004427 RHS Repeat; Region: RHS_repeat; pfam05593 469008004428 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008004429 RHS Repeat; Region: RHS_repeat; pfam05593 469008004430 RHS Repeat; Region: RHS_repeat; pfam05593 469008004431 RHS protein; Region: RHS; pfam03527 469008004432 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008004433 potential frameshift: common BLAST hit: gi|291281062|ref|YP_003497880.1| transposase yncI 469008004434 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008004435 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008004436 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004437 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004438 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008004439 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008004440 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004441 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 469008004442 active site 1 [active] 469008004443 dimer interface [polypeptide binding]; other site 469008004444 hexamer interface [polypeptide binding]; other site 469008004445 active site 2 [active] 469008004446 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469008004447 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 469008004448 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 469008004449 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 469008004450 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 469008004451 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 469008004452 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 469008004453 [4Fe-4S] binding site [ion binding]; other site 469008004454 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 469008004455 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 469008004456 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 469008004457 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 469008004458 molybdopterin cofactor binding site; other site 469008004459 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 469008004460 potential frameshift: common BLAST hit: gi|260867911|ref|YP_003234313.1| T3SS effector-like protein EspR 469008004461 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 469008004462 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 469008004463 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008004464 aromatic amino acid exporter; Provisional; Region: PRK11689 469008004465 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 469008004466 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 469008004467 [4Fe-4S] binding site [ion binding]; other site 469008004468 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 469008004469 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 469008004470 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 469008004471 molybdopterin cofactor binding site; other site 469008004472 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 469008004473 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 469008004474 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 469008004475 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008004476 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469008004477 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 469008004478 non-specific DNA binding site [nucleotide binding]; other site 469008004479 salt bridge; other site 469008004480 sequence-specific DNA binding site [nucleotide binding]; other site 469008004481 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 469008004482 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 469008004483 NAD binding site [chemical binding]; other site 469008004484 substrate binding site [chemical binding]; other site 469008004485 catalytic Zn binding site [ion binding]; other site 469008004486 tetramer interface [polypeptide binding]; other site 469008004487 structural Zn binding site [ion binding]; other site 469008004488 malate dehydrogenase; Provisional; Region: PRK13529 469008004489 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469008004490 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 469008004491 NAD(P) binding site [chemical binding]; other site 469008004492 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 469008004493 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 469008004494 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 469008004495 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469008004496 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004497 Walker A/P-loop; other site 469008004498 ATP binding site [chemical binding]; other site 469008004499 Q-loop/lid; other site 469008004500 ABC transporter signature motif; other site 469008004501 Walker B; other site 469008004502 D-loop; other site 469008004503 H-loop/switch region; other site 469008004504 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008004505 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 469008004506 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004507 Walker A/P-loop; other site 469008004508 ATP binding site [chemical binding]; other site 469008004509 Q-loop/lid; other site 469008004510 ABC transporter signature motif; other site 469008004511 Walker B; other site 469008004512 D-loop; other site 469008004513 H-loop/switch region; other site 469008004514 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008004515 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 469008004516 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008004517 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 469008004518 dimer interface [polypeptide binding]; other site 469008004519 conserved gate region; other site 469008004520 putative PBP binding loops; other site 469008004521 ABC-ATPase subunit interface; other site 469008004522 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469008004523 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 469008004524 dimer interface [polypeptide binding]; other site 469008004525 conserved gate region; other site 469008004526 putative PBP binding loops; other site 469008004527 ABC-ATPase subunit interface; other site 469008004528 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008004529 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 469008004530 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 469008004531 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 469008004532 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 469008004533 putative active site [active] 469008004534 heme pocket [chemical binding]; other site 469008004535 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 469008004536 putative active site [active] 469008004537 heme pocket [chemical binding]; other site 469008004538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004539 metal binding site [ion binding]; metal-binding site 469008004540 active site 469008004541 I-site; other site 469008004542 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 469008004543 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004545 metal binding site [ion binding]; metal-binding site 469008004546 active site 469008004547 I-site; other site 469008004548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 469008004549 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 469008004550 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 469008004551 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 469008004552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004553 catalytic residue [active] 469008004554 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008004555 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469008004556 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008004557 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008004558 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008004559 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 469008004560 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469008004561 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 469008004562 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 469008004563 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 469008004564 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008004565 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 469008004566 FeS/SAM binding site; other site 469008004567 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 469008004568 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008004569 Sulfatase; Region: Sulfatase; pfam00884 469008004570 transcriptional regulator YdeO; Provisional; Region: PRK09940 469008004571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004572 putative oxidoreductase; Provisional; Region: PRK09939 469008004573 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 469008004574 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004575 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 469008004576 putative molybdopterin cofactor binding site; other site 469008004577 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 469008004578 mannosyl binding site [chemical binding]; other site 469008004579 Fimbrial protein; Region: Fimbrial; pfam00419 469008004580 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008004581 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008004582 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008004583 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008004584 PapC C-terminal domain; Region: PapC_C; pfam13953 469008004585 Helix-turn-helix domain; Region: HTH_18; pfam12833 469008004586 Fimbrial protein; Region: Fimbrial; cl01416 469008004587 HipA N-terminal domain; Region: Couple_hipA; pfam13657 469008004588 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 469008004589 HipA-like N-terminal domain; Region: HipA_N; pfam07805 469008004590 HipA-like C-terminal domain; Region: HipA_C; pfam07804 469008004591 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 469008004592 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 469008004593 non-specific DNA binding site [nucleotide binding]; other site 469008004594 salt bridge; other site 469008004595 sequence-specific DNA binding site [nucleotide binding]; other site 469008004596 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 469008004597 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008004598 TM-ABC transporter signature motif; other site 469008004599 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 469008004600 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 469008004601 ligand binding site [chemical binding]; other site 469008004602 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 469008004603 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 469008004604 putative active site; other site 469008004605 catalytic residue [active] 469008004606 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 469008004607 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 469008004608 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 469008004609 S-adenosylmethionine binding site [chemical binding]; other site 469008004610 Predicted membrane protein [Function unknown]; Region: COG3781 469008004611 altronate oxidoreductase; Provisional; Region: PRK03643 469008004612 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008004613 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008004614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004616 metal binding site [ion binding]; metal-binding site 469008004617 active site 469008004618 I-site; other site 469008004619 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 469008004620 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469008004621 glutaminase; Provisional; Region: PRK00971 469008004622 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 469008004623 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 469008004624 NAD(P) binding site [chemical binding]; other site 469008004625 catalytic residues [active] 469008004626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008004627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004628 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 469008004629 putative dimerization interface [polypeptide binding]; other site 469008004630 putative arabinose transporter; Provisional; Region: PRK03545 469008004631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004632 putative substrate translocation pore; other site 469008004633 inner membrane protein; Provisional; Region: PRK10995 469008004634 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 469008004635 non-specific DNA binding site [nucleotide binding]; other site 469008004636 salt bridge; other site 469008004637 sequence-specific DNA binding site [nucleotide binding]; other site 469008004638 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 469008004639 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 469008004640 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008004641 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 469008004642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004643 hypothetical protein; Provisional; Region: PRK10106 469008004644 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 469008004645 EamA-like transporter family; Region: EamA; pfam00892 469008004646 EamA-like transporter family; Region: EamA; pfam00892 469008004647 putative transporter; Provisional; Region: PRK10054 469008004648 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004649 putative substrate translocation pore; other site 469008004650 diguanylate cyclase; Provisional; Region: PRK09894 469008004651 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 469008004652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004653 metal binding site [ion binding]; metal-binding site 469008004654 active site 469008004655 I-site; other site 469008004656 hypothetical protein; Provisional; Region: PRK10053 469008004657 hypothetical protein; Validated; Region: PRK03657 469008004658 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 469008004659 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 469008004660 active site 469008004661 Zn binding site [ion binding]; other site 469008004662 malonic semialdehyde reductase; Provisional; Region: PRK10538 469008004663 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 469008004664 putative NAD(P) binding site [chemical binding]; other site 469008004665 homodimer interface [polypeptide binding]; other site 469008004666 homotetramer interface [polypeptide binding]; other site 469008004667 active site 469008004668 Transcriptional regulators [Transcription]; Region: GntR; COG1802 469008004669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004670 DNA-binding site [nucleotide binding]; DNA binding site 469008004671 FCD domain; Region: FCD; pfam07729 469008004672 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 469008004673 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 469008004674 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008004675 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008004676 metabolite-proton symporter; Region: 2A0106; TIGR00883 469008004677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004678 putative substrate translocation pore; other site 469008004679 cryptic prophage, Qin-like (KIM) 469008004680 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469008004681 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 469008004682 catalytic residues [active] 469008004683 catalytic nucleophile [active] 469008004684 Presynaptic Site I dimer interface [polypeptide binding]; other site 469008004685 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469008004686 Synaptic Flat tetramer interface [polypeptide binding]; other site 469008004687 Synaptic Site I dimer interface [polypeptide binding]; other site 469008004688 DNA binding site [nucleotide binding] 469008004689 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 469008004690 DNA-binding interface [nucleotide binding]; DNA binding site 469008004691 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 469008004692 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 469008004693 Transposase; Region: HTH_Tnp_1; cl17663 469008004694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004695 putative transposase OrfB; Reviewed; Region: PHA02517 469008004696 HTH-like domain; Region: HTH_21; pfam13276 469008004697 Integrase core domain; Region: rve; pfam00665 469008004698 Integrase core domain; Region: rve_2; pfam13333 469008004699 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 469008004700 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 469008004701 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 469008004702 Protein of unknown function (DUF968); Region: DUF968; pfam06147 469008004703 Hok/gef family; Region: HOK_GEF; pfam01848 469008004704 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 469008004705 primosomal protein DnaI; Provisional; Region: PRK02854 469008004706 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 469008004707 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 469008004708 transcriptional repressor DicA; Reviewed; Region: PRK09706 469008004709 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 469008004710 non-specific DNA binding site [nucleotide binding]; other site 469008004711 salt bridge; other site 469008004712 sequence-specific DNA binding site [nucleotide binding]; other site 469008004713 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 469008004714 DicB protein; Region: DicB; pfam05358 469008004715 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 469008004716 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 469008004717 putative oxidoreductase; Provisional; Region: PRK10083 469008004718 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 469008004719 putative NAD(P) binding site [chemical binding]; other site 469008004720 catalytic Zn binding site [ion binding]; other site 469008004721 structural Zn binding site [ion binding]; other site 469008004722 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 469008004723 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 469008004724 putative active site pocket [active] 469008004725 putative metal binding site [ion binding]; other site 469008004726 hypothetical protein; Provisional; Region: PRK02237 469008004727 hypothetical protein; Provisional; Region: PRK13659 469008004728 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 469008004729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008004730 Coenzyme A binding pocket [chemical binding]; other site 469008004731 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 469008004732 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 469008004733 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 469008004734 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 469008004735 putative [Fe4-S4] binding site [ion binding]; other site 469008004736 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004737 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 469008004738 putative molybdopterin cofactor binding site; other site 469008004739 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 469008004740 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 469008004741 putative [Fe4-S4] binding site [ion binding]; other site 469008004742 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004743 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 469008004744 putative molybdopterin cofactor binding site; other site 469008004745 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 469008004746 4Fe-4S binding domain; Region: Fer4; cl02805 469008004747 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 469008004748 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 469008004749 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008004750 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 469008004751 Cl- selectivity filter; other site 469008004752 Cl- binding residues [ion binding]; other site 469008004753 pore gating glutamate residue; other site 469008004754 dimer interface [polypeptide binding]; other site 469008004755 putative dithiobiotin synthetase; Provisional; Region: PRK12374 469008004756 AAA domain; Region: AAA_26; pfam13500 469008004757 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 469008004758 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008004759 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008004760 nucleotide binding site [chemical binding]; other site 469008004761 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 469008004762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004763 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 469008004764 dimerization interface [polypeptide binding]; other site 469008004765 substrate binding pocket [chemical binding]; other site 469008004766 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 469008004767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004768 putative substrate translocation pore; other site 469008004769 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 469008004770 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 469008004771 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 469008004772 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 469008004773 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008004774 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 469008004775 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 469008004776 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 469008004777 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 469008004778 ligand binding site [chemical binding]; other site 469008004779 homodimer interface [polypeptide binding]; other site 469008004780 NAD(P) binding site [chemical binding]; other site 469008004781 trimer interface B [polypeptide binding]; other site 469008004782 trimer interface A [polypeptide binding]; other site 469008004783 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 469008004784 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004785 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004786 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004787 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 469008004788 Spore germination protein; Region: Spore_permease; cl17796 469008004789 dihydromonapterin reductase; Provisional; Region: PRK06483 469008004790 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 469008004791 NADP binding site [chemical binding]; other site 469008004792 substrate binding pocket [chemical binding]; other site 469008004793 active site 469008004794 GlpM protein; Region: GlpM; pfam06942 469008004795 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 469008004796 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 469008004797 active site 469008004798 phosphorylation site [posttranslational modification] 469008004799 intermolecular recognition site; other site 469008004800 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 469008004801 DNA binding site [nucleotide binding] 469008004802 sensor protein RstB; Provisional; Region: PRK10604 469008004803 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 469008004804 dimerization interface [polypeptide binding]; other site 469008004805 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 469008004806 dimer interface [polypeptide binding]; other site 469008004807 phosphorylation site [posttranslational modification] 469008004808 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 469008004809 ATP binding site [chemical binding]; other site 469008004810 Mg2+ binding site [ion binding]; other site 469008004811 G-X-G motif; other site 469008004812 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 469008004813 fumarate hydratase; Reviewed; Region: fumC; PRK00485 469008004814 Class II fumarases; Region: Fumarase_classII; cd01362 469008004815 active site 469008004816 tetramer interface [polypeptide binding]; other site 469008004817 fumarate hydratase; Provisional; Region: PRK15389 469008004818 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 469008004819 Fumarase C-terminus; Region: Fumerase_C; pfam05683 469008004820 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 469008004821 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 469008004822 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 469008004823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 469008004824 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 469008004825 putative outer membrane porin protein; Provisional; Region: PRK11379 469008004826 glucuronide transporter; Provisional; Region: PRK09848 469008004827 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008004828 beta-D-glucuronidase; Provisional; Region: PRK10150 469008004829 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008004830 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008004831 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008004832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008004833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008004834 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 469008004835 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 469008004836 NAD binding site [chemical binding]; other site 469008004837 substrate binding site [chemical binding]; other site 469008004838 homotetramer interface [polypeptide binding]; other site 469008004839 homodimer interface [polypeptide binding]; other site 469008004840 active site 469008004841 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 469008004842 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008004843 DNA binding site [nucleotide binding] 469008004844 domain linker motif; other site 469008004845 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 469008004846 putative dimerization interface [polypeptide binding]; other site 469008004847 putative ligand binding site [chemical binding]; other site 469008004848 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 469008004849 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008004850 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 469008004851 active site turn [active] 469008004852 phosphorylation site [posttranslational modification] 469008004853 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 469008004854 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 469008004855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004856 homodimer interface [polypeptide binding]; other site 469008004857 catalytic residue [active] 469008004858 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 469008004859 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 469008004860 active site 469008004861 purine riboside binding site [chemical binding]; other site 469008004862 putative oxidoreductase; Provisional; Region: PRK11579 469008004863 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008004864 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008004865 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 469008004866 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 469008004867 electron transport complex protein RsxA; Provisional; Region: PRK05151 469008004868 electron transport complex protein RnfB; Provisional; Region: PRK05113 469008004869 Putative Fe-S cluster; Region: FeS; pfam04060 469008004870 4Fe-4S binding domain; Region: Fer4; pfam00037 469008004871 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 469008004872 SLBB domain; Region: SLBB; pfam10531 469008004873 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 469008004874 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 469008004875 electron transport complex protein RnfG; Validated; Region: PRK01908 469008004876 electron transport complex RsxE subunit; Provisional; Region: PRK12405 469008004877 endonuclease III; Provisional; Region: PRK10702 469008004878 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008004879 minor groove reading motif; other site 469008004880 helix-hairpin-helix signature motif; other site 469008004881 substrate binding pocket [chemical binding]; other site 469008004882 active site 469008004883 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 469008004884 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008004885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004886 putative substrate translocation pore; other site 469008004887 POT family; Region: PTR2; pfam00854 469008004888 glutathionine S-transferase; Provisional; Region: PRK10542 469008004889 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 469008004890 C-terminal domain interface [polypeptide binding]; other site 469008004891 GSH binding site (G-site) [chemical binding]; other site 469008004892 dimer interface [polypeptide binding]; other site 469008004893 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 469008004894 N-terminal domain interface [polypeptide binding]; other site 469008004895 dimer interface [polypeptide binding]; other site 469008004896 substrate binding pocket (H-site) [chemical binding]; other site 469008004897 pyridoxamine kinase; Validated; Region: PRK05756 469008004898 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 469008004899 dimer interface [polypeptide binding]; other site 469008004900 pyridoxal binding site [chemical binding]; other site 469008004901 ATP binding site [chemical binding]; other site 469008004902 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 469008004903 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 469008004904 active site 469008004905 HIGH motif; other site 469008004906 dimer interface [polypeptide binding]; other site 469008004907 KMSKS motif; other site 469008004908 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 469008004909 RNA binding surface [nucleotide binding]; other site 469008004910 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 469008004911 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 469008004912 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 469008004913 lysozyme inhibitor; Provisional; Region: PRK11372 469008004914 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 469008004915 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 469008004916 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 469008004917 transcriptional regulator SlyA; Provisional; Region: PRK03573 469008004918 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 469008004919 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 469008004920 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008004921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008004922 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008004923 Fusaric acid resistance protein family; Region: FUSC; pfam04632 469008004924 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008004925 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 469008004926 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 469008004927 E-class dimer interface [polypeptide binding]; other site 469008004928 P-class dimer interface [polypeptide binding]; other site 469008004929 active site 469008004930 Cu2+ binding site [ion binding]; other site 469008004931 Zn2+ binding site [ion binding]; other site 469008004932 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 469008004933 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008004934 active site 469008004935 catalytic tetrad [active] 469008004936 Predicted Fe-S protein [General function prediction only]; Region: COG3313 469008004937 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008004938 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008004939 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469008004940 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 469008004941 FMN binding site [chemical binding]; other site 469008004942 active site 469008004943 substrate binding site [chemical binding]; other site 469008004944 catalytic residue [active] 469008004945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008004946 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 469008004947 dimer interface [polypeptide binding]; other site 469008004948 active site 469008004949 metal binding site [ion binding]; metal-binding site 469008004950 glutathione binding site [chemical binding]; other site 469008004951 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 469008004952 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 469008004953 dimer interface [polypeptide binding]; other site 469008004954 catalytic site [active] 469008004955 putative active site [active] 469008004956 putative substrate binding site [chemical binding]; other site 469008004957 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 469008004958 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 469008004959 ATP binding site [chemical binding]; other site 469008004960 putative Mg++ binding site [ion binding]; other site 469008004961 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 469008004962 nucleotide binding region [chemical binding]; other site 469008004963 ATP-binding site [chemical binding]; other site 469008004964 DEAD/H associated; Region: DEAD_assoc; pfam08494 469008004965 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 469008004966 putative GSH binding site [chemical binding]; other site 469008004967 catalytic residues [active] 469008004968 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008004969 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008004970 superoxide dismutase; Provisional; Region: PRK10543 469008004971 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 469008004972 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 469008004973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004974 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008004975 putative substrate translocation pore; other site 469008004976 hypothetical protein; Provisional; Region: PRK14756 469008004977 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 469008004978 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008004979 DNA binding site [nucleotide binding] 469008004980 domain linker motif; other site 469008004981 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 469008004982 dimerization interface [polypeptide binding]; other site 469008004983 ligand binding site [chemical binding]; other site 469008004984 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008004985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004986 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 469008004987 dimerization interface [polypeptide binding]; other site 469008004988 putative transporter; Provisional; Region: PRK11043 469008004989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004990 putative substrate translocation pore; other site 469008004991 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 469008004992 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 469008004993 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 469008004994 S-adenosylmethionine binding site [chemical binding]; other site 469008004995 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 469008004996 Lumazine binding domain; Region: Lum_binding; pfam00677 469008004997 Lumazine binding domain; Region: Lum_binding; pfam00677 469008004998 multidrug efflux protein; Reviewed; Region: PRK01766 469008004999 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 469008005000 cation binding site [ion binding]; other site 469008005001 hypothetical protein; Provisional; Region: PRK09945 469008005002 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 469008005003 putative monooxygenase; Provisional; Region: PRK11118 469008005004 hypothetical protein; Provisional; Region: PRK09897 469008005005 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 469008005006 hypothetical protein; Provisional; Region: PRK09946 469008005007 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 469008005008 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 469008005009 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 469008005010 hypothetical protein; Provisional; Region: PRK09947 469008005011 putative oxidoreductase; Provisional; Region: PRK09849 469008005012 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 469008005013 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 469008005014 hypothetical protein; Provisional; Region: PRK09898 469008005015 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 469008005016 hypothetical protein; Provisional; Region: PRK10292 469008005017 pyruvate kinase; Provisional; Region: PRK09206 469008005018 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 469008005019 domain interfaces; other site 469008005020 active site 469008005021 murein lipoprotein; Provisional; Region: PRK15396 469008005022 L,D-transpeptidase; Provisional; Region: PRK10190 469008005023 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008005024 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008005025 cysteine desufuration protein SufE; Provisional; Region: PRK09296 469008005026 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 469008005027 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 469008005028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008005029 catalytic residue [active] 469008005030 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 469008005031 FeS assembly protein SufD; Region: sufD; TIGR01981 469008005032 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 469008005033 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 469008005034 Walker A/P-loop; other site 469008005035 ATP binding site [chemical binding]; other site 469008005036 Q-loop/lid; other site 469008005037 ABC transporter signature motif; other site 469008005038 Walker B; other site 469008005039 D-loop; other site 469008005040 H-loop/switch region; other site 469008005041 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 469008005042 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 469008005043 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 469008005044 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 469008005045 CoenzymeA binding site [chemical binding]; other site 469008005046 subunit interaction site [polypeptide binding]; other site 469008005047 PHB binding site; other site 469008005048 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469008005049 FAD binding domain; Region: FAD_binding_4; pfam01565 469008005050 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469008005051 putative inner membrane protein; Provisional; Region: PRK10983 469008005052 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008005053 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 469008005054 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005055 putative substrate translocation pore; other site 469008005056 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 469008005057 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469008005058 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469008005059 shikimate binding site; other site 469008005060 NAD(P) binding site [chemical binding]; other site 469008005061 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 469008005062 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 469008005063 active site 469008005064 catalytic residue [active] 469008005065 dimer interface [polypeptide binding]; other site 469008005066 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 469008005067 Coenzyme A transferase; Region: CoA_trans; smart00882 469008005068 Coenzyme A transferase; Region: CoA_trans; cl17247 469008005069 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 469008005070 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 469008005071 active site 469008005072 Cupin domain; Region: Cupin_2; pfam07883 469008005073 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008005074 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 469008005075 Ligand binding site [chemical binding]; other site 469008005076 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008005077 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 469008005078 Electron transfer flavoprotein domain; Region: ETF; smart00893 469008005079 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008005080 oxidoreductase; Provisional; Region: PRK10015 469008005081 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469008005082 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 469008005083 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 469008005084 acyl-activating enzyme (AAE) consensus motif; other site 469008005085 putative AMP binding site [chemical binding]; other site 469008005086 putative active site [active] 469008005087 putative CoA binding site [chemical binding]; other site 469008005088 phosphoenolpyruvate synthase; Validated; Region: PRK06464 469008005089 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469008005090 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008005091 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008005092 PEP synthetase regulatory protein; Provisional; Region: PRK05339 469008005093 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 469008005094 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008005095 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 469008005096 Uncharacterized conserved protein [Function unknown]; Region: COG0397 469008005097 hypothetical protein; Validated; Region: PRK00029 469008005098 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 469008005099 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008005100 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 469008005101 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008005102 Walker A/P-loop; other site 469008005103 ATP binding site [chemical binding]; other site 469008005104 Q-loop/lid; other site 469008005105 ABC transporter signature motif; other site 469008005106 Walker B; other site 469008005107 D-loop; other site 469008005108 H-loop/switch region; other site 469008005109 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 469008005110 catalytic residues [active] 469008005111 dimer interface [polypeptide binding]; other site 469008005112 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008005113 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 469008005114 ABC-ATPase subunit interface; other site 469008005115 dimer interface [polypeptide binding]; other site 469008005116 putative PBP binding regions; other site 469008005117 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 469008005118 IHF dimer interface [polypeptide binding]; other site 469008005119 IHF - DNA interface [nucleotide binding]; other site 469008005120 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 469008005121 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 469008005122 putative tRNA-binding site [nucleotide binding]; other site 469008005123 B3/4 domain; Region: B3_4; pfam03483 469008005124 tRNA synthetase B5 domain; Region: B5; smart00874 469008005125 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 469008005126 dimer interface [polypeptide binding]; other site 469008005127 motif 1; other site 469008005128 motif 3; other site 469008005129 motif 2; other site 469008005130 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 469008005131 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 469008005132 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 469008005133 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 469008005134 dimer interface [polypeptide binding]; other site 469008005135 motif 1; other site 469008005136 active site 469008005137 motif 2; other site 469008005138 motif 3; other site 469008005139 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 469008005140 23S rRNA binding site [nucleotide binding]; other site 469008005141 L21 binding site [polypeptide binding]; other site 469008005142 L13 binding site [polypeptide binding]; other site 469008005143 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 469008005144 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 469008005145 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 469008005146 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 469008005147 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 469008005148 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 469008005149 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 469008005150 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 469008005151 active site 469008005152 dimer interface [polypeptide binding]; other site 469008005153 motif 1; other site 469008005154 motif 2; other site 469008005155 motif 3; other site 469008005156 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 469008005157 anticodon binding site; other site 469008005158 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 469008005159 6-phosphofructokinase 2; Provisional; Region: PRK10294 469008005160 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 469008005161 putative substrate binding site [chemical binding]; other site 469008005162 putative ATP binding site [chemical binding]; other site 469008005163 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 469008005164 Phosphotransferase enzyme family; Region: APH; pfam01636 469008005165 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 469008005166 active site 469008005167 ATP binding site [chemical binding]; other site 469008005168 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 469008005169 YniB-like protein; Region: YniB; pfam14002 469008005170 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 469008005171 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469008005172 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 469008005173 motif II; other site 469008005174 inner membrane protein; Provisional; Region: PRK11648 469008005175 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 469008005176 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008005177 cell division modulator; Provisional; Region: PRK10113 469008005178 hydroperoxidase II; Provisional; Region: katE; PRK11249 469008005179 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 469008005180 tetramer interface [polypeptide binding]; other site 469008005181 heme binding pocket [chemical binding]; other site 469008005182 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 469008005183 domain interactions; other site 469008005184 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 469008005185 putative active site [active] 469008005186 YdjC motif; other site 469008005187 Mg binding site [ion binding]; other site 469008005188 putative homodimer interface [polypeptide binding]; other site 469008005189 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 469008005190 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 469008005191 NAD binding site [chemical binding]; other site 469008005192 sugar binding site [chemical binding]; other site 469008005193 divalent metal binding site [ion binding]; other site 469008005194 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008005195 dimer interface [polypeptide binding]; other site 469008005196 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 469008005197 Cupin domain; Region: Cupin_2; pfam07883 469008005198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008005199 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 469008005200 methionine cluster; other site 469008005201 active site 469008005202 phosphorylation site [posttranslational modification] 469008005203 metal binding site [ion binding]; metal-binding site 469008005204 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 469008005205 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 469008005206 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 469008005207 active site 469008005208 P-loop; other site 469008005209 phosphorylation site [posttranslational modification] 469008005210 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 469008005211 NAD+ synthetase; Region: nadE; TIGR00552 469008005212 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 469008005213 homodimer interface [polypeptide binding]; other site 469008005214 NAD binding pocket [chemical binding]; other site 469008005215 ATP binding pocket [chemical binding]; other site 469008005216 Mg binding site [ion binding]; other site 469008005217 active-site loop [active] 469008005218 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 469008005219 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469008005220 GIY-YIG motif/motif A; other site 469008005221 active site 469008005222 catalytic site [active] 469008005223 putative DNA binding site [nucleotide binding]; other site 469008005224 metal binding site [ion binding]; metal-binding site 469008005225 hypothetical protein; Provisional; Region: PRK11396 469008005226 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 469008005227 dimer interface [polypeptide binding]; other site 469008005228 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 469008005229 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 469008005230 putative active site [active] 469008005231 Zn binding site [ion binding]; other site 469008005232 succinylarginine dihydrolase; Provisional; Region: PRK13281 469008005233 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 469008005234 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 469008005235 NAD(P) binding site [chemical binding]; other site 469008005236 catalytic residues [active] 469008005237 arginine succinyltransferase; Provisional; Region: PRK10456 469008005238 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 469008005239 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 469008005240 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 469008005241 inhibitor-cofactor binding pocket; inhibition site 469008005242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008005243 catalytic residue [active] 469008005244 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 469008005245 putative catalytic site [active] 469008005246 putative phosphate binding site [ion binding]; other site 469008005247 active site 469008005248 metal binding site A [ion binding]; metal-binding site 469008005249 DNA binding site [nucleotide binding] 469008005250 putative AP binding site [nucleotide binding]; other site 469008005251 putative metal binding site B [ion binding]; other site 469008005252 Uncharacterized conserved protein [Function unknown]; Region: COG0398 469008005253 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008005254 Uncharacterized conserved protein [Function unknown]; Region: COG0398 469008005255 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008005256 Uncharacterized conserved protein [Function unknown]; Region: COG2128 469008005257 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 469008005258 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 469008005259 hypothetical protein; Provisional; Region: PRK11622 469008005260 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 469008005261 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 469008005262 dimer interface [polypeptide binding]; other site 469008005263 conserved gate region; other site 469008005264 putative PBP binding loops; other site 469008005265 ABC-ATPase subunit interface; other site 469008005266 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 469008005267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008005268 Walker A/P-loop; other site 469008005269 ATP binding site [chemical binding]; other site 469008005270 Q-loop/lid; other site 469008005271 ABC transporter signature motif; other site 469008005272 Walker B; other site 469008005273 D-loop; other site 469008005274 H-loop/switch region; other site 469008005275 Rhodanese Homology Domain; Region: RHOD; smart00450 469008005276 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 469008005277 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 469008005278 active site residue [active] 469008005279 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 469008005280 active site residue [active] 469008005281 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469008005282 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 469008005283 active site 469008005284 8-oxo-dGMP binding site [chemical binding]; other site 469008005285 nudix motif; other site 469008005286 metal binding site [ion binding]; metal-binding site 469008005287 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 469008005288 glutamate dehydrogenase; Provisional; Region: PRK09414 469008005289 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 469008005290 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 469008005291 NAD(P) binding site [chemical binding]; other site 469008005292 hypothetical protein; Provisional; Region: PRK11380 469008005293 DNA topoisomerase III; Provisional; Region: PRK07726 469008005294 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 469008005295 active site 469008005296 putative interdomain interaction site [polypeptide binding]; other site 469008005297 putative metal-binding site [ion binding]; other site 469008005298 putative nucleotide binding site [chemical binding]; other site 469008005299 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 469008005300 domain I; other site 469008005301 DNA binding groove [nucleotide binding] 469008005302 phosphate binding site [ion binding]; other site 469008005303 domain II; other site 469008005304 domain III; other site 469008005305 nucleotide binding site [chemical binding]; other site 469008005306 catalytic site [active] 469008005307 domain IV; other site 469008005308 selenophosphate synthetase; Provisional; Region: PRK00943 469008005309 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 469008005310 dimerization interface [polypeptide binding]; other site 469008005311 putative ATP binding site [chemical binding]; other site 469008005312 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 469008005313 putative FMN binding site [chemical binding]; other site 469008005314 protease 4; Provisional; Region: PRK10949 469008005315 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 469008005316 tandem repeat interface [polypeptide binding]; other site 469008005317 oligomer interface [polypeptide binding]; other site 469008005318 active site residues [active] 469008005319 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 469008005320 tandem repeat interface [polypeptide binding]; other site 469008005321 oligomer interface [polypeptide binding]; other site 469008005322 active site residues [active] 469008005323 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 469008005324 active site 469008005325 homodimer interface [polypeptide binding]; other site 469008005326 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 469008005327 Isochorismatase family; Region: Isochorismatase; pfam00857 469008005328 catalytic triad [active] 469008005329 metal binding site [ion binding]; metal-binding site 469008005330 conserved cis-peptide bond; other site 469008005331 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 469008005332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005333 putative substrate translocation pore; other site 469008005334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005335 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008005336 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008005337 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008005338 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 469008005339 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008005340 active site 469008005341 catalytic tetrad [active] 469008005342 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008005343 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 469008005344 substrate binding site [chemical binding]; other site 469008005345 ATP binding site [chemical binding]; other site 469008005346 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 469008005347 intersubunit interface [polypeptide binding]; other site 469008005348 active site 469008005349 zinc binding site [ion binding]; other site 469008005350 Na+ binding site [ion binding]; other site 469008005351 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008005352 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 469008005353 inhibitor binding site; inhibition site 469008005354 catalytic Zn binding site [ion binding]; other site 469008005355 structural Zn binding site [ion binding]; other site 469008005356 NADP binding site [chemical binding]; other site 469008005357 tetramer interface [polypeptide binding]; other site 469008005358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005360 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008005361 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 469008005362 putative NAD(P) binding site [chemical binding]; other site 469008005363 catalytic Zn binding site [ion binding]; other site 469008005364 structural Zn binding site [ion binding]; other site 469008005365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 469008005366 methionine sulfoxide reductase B; Provisional; Region: PRK00222 469008005367 SelR domain; Region: SelR; pfam01641 469008005368 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 469008005369 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008005370 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008005371 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 469008005372 active site 469008005373 phosphate binding residues; other site 469008005374 catalytic residues [active] 469008005375 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 469008005376 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008005377 active site 469008005378 catalytic tetrad [active] 469008005379 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 469008005380 PrkA family serine protein kinase; Provisional; Region: PRK15455 469008005381 AAA ATPase domain; Region: AAA_16; pfam13191 469008005382 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 469008005383 hypothetical protein; Provisional; Region: PRK05325 469008005384 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005385 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005386 metal binding site [ion binding]; metal-binding site 469008005387 active site 469008005388 I-site; other site 469008005389 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005391 metal binding site [ion binding]; metal-binding site 469008005392 active site 469008005393 I-site; other site 469008005394 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 469008005395 putative deacylase active site [active] 469008005396 Predicted membrane protein [Function unknown]; Region: COG2707 469008005397 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008005398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008005399 cyanate transporter; Region: CynX; TIGR00896 469008005400 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005401 Uncharacterized conserved protein [Function unknown]; Region: COG3189 469008005402 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 469008005403 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469008005404 Domain of unknown function (DUF333); Region: DUF333; pfam03891 469008005405 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 469008005406 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008005407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005409 metal binding site [ion binding]; metal-binding site 469008005410 active site 469008005411 I-site; other site 469008005412 hypothetical protein; Provisional; Region: PRK10457 469008005413 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 469008005414 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 469008005415 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008005416 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008005417 leucine export protein LeuE; Provisional; Region: PRK10958 469008005418 transcriptional activator TtdR; Provisional; Region: PRK09801 469008005419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005420 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 469008005421 putative effector binding pocket; other site 469008005422 putative dimerization interface [polypeptide binding]; other site 469008005423 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 469008005424 tartrate dehydrogenase; Region: TTC; TIGR02089 469008005425 putative transporter; Provisional; Region: PRK09950 469008005426 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 469008005427 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 469008005428 [2Fe-2S] cluster binding site [ion binding]; other site 469008005429 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 469008005430 putative alpha subunit interface [polypeptide binding]; other site 469008005431 putative active site [active] 469008005432 putative substrate binding site [chemical binding]; other site 469008005433 Fe binding site [ion binding]; other site 469008005434 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 469008005435 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 469008005436 FMN-binding pocket [chemical binding]; other site 469008005437 flavin binding motif; other site 469008005438 phosphate binding motif [ion binding]; other site 469008005439 beta-alpha-beta structure motif; other site 469008005440 NAD binding pocket [chemical binding]; other site 469008005441 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 469008005442 catalytic loop [active] 469008005443 iron binding site [ion binding]; other site 469008005444 ribonuclease D; Provisional; Region: PRK10829 469008005445 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 469008005446 catalytic site [active] 469008005447 putative active site [active] 469008005448 putative substrate binding site [chemical binding]; other site 469008005449 Helicase and RNase D C-terminal; Region: HRDC; smart00341 469008005450 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 469008005451 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 469008005452 acyl-activating enzyme (AAE) consensus motif; other site 469008005453 putative AMP binding site [chemical binding]; other site 469008005454 putative active site [active] 469008005455 putative CoA binding site [chemical binding]; other site 469008005456 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 469008005457 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 469008005458 Glycoprotease family; Region: Peptidase_M22; pfam00814 469008005459 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 469008005460 DEAD/DEAH box helicase; Region: DEAD; pfam00270 469008005461 DEAD_2; Region: DEAD_2; pfam06733 469008005462 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469008005463 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 469008005464 homotrimer interaction site [polypeptide binding]; other site 469008005465 putative active site [active] 469008005466 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 469008005467 hypothetical protein; Provisional; Region: PRK05114 469008005468 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 469008005469 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469008005470 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 469008005471 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 469008005472 putative active site [active] 469008005473 putative CoA binding site [chemical binding]; other site 469008005474 nudix motif; other site 469008005475 metal binding site [ion binding]; metal-binding site 469008005476 L-serine deaminase; Provisional; Region: PRK15023 469008005477 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008005478 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008005479 phage resistance protein; Provisional; Region: PRK10551 469008005480 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008005481 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 469008005482 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008005483 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469008005484 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 469008005485 Transporter associated domain; Region: CorC_HlyC; smart01091 469008005486 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 469008005487 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 469008005488 active pocket/dimerization site; other site 469008005489 active site 469008005490 phosphorylation site [posttranslational modification] 469008005491 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 469008005492 active site 469008005493 phosphorylation site [posttranslational modification] 469008005494 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 469008005495 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 469008005496 Predicted membrane protein [Function unknown]; Region: COG4811 469008005497 hypothetical protein; Provisional; Region: PRK11469 469008005498 Domain of unknown function DUF; Region: DUF204; pfam02659 469008005499 Domain of unknown function DUF; Region: DUF204; pfam02659 469008005500 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 469008005501 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 469008005502 S-adenosylmethionine binding site [chemical binding]; other site 469008005503 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 469008005504 DNA-binding site [nucleotide binding]; DNA binding site 469008005505 RNA-binding motif; other site 469008005506 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 469008005507 YebO-like protein; Region: YebO; pfam13974 469008005508 PhoPQ regulatory protein; Provisional; Region: PRK10299 469008005509 YobH-like protein; Region: YobH; pfam13996 469008005510 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 469008005511 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 469008005512 dimerization interface [polypeptide binding]; other site 469008005513 putative Zn2+ binding site [ion binding]; other site 469008005514 putative DNA binding site [nucleotide binding]; other site 469008005515 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008005516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005517 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008005518 putative substrate translocation pore; other site 469008005519 Predicted integral membrane protein [Function unknown]; Region: COG5521 469008005520 heat shock protein HtpX; Provisional; Region: PRK05457 469008005521 carboxy-terminal protease; Provisional; Region: PRK11186 469008005522 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 469008005523 protein binding site [polypeptide binding]; other site 469008005524 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 469008005525 Catalytic dyad [active] 469008005526 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 469008005527 ProP expression regulator; Provisional; Region: PRK04950 469008005528 ProQ/FINO family; Region: ProQ; pfam04352 469008005529 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 469008005530 GAF domain; Region: GAF_2; pfam13185 469008005531 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 469008005532 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008005533 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008005534 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 469008005535 mce related protein; Region: MCE; pfam02470 469008005536 mce related protein; Region: MCE; pfam02470 469008005537 mce related protein; Region: MCE; pfam02470 469008005538 mce related protein; Region: MCE; pfam02470 469008005539 mce related protein; Region: MCE; pfam02470 469008005540 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 469008005541 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 469008005542 S-adenosylmethionine binding site [chemical binding]; other site 469008005543 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 469008005544 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 469008005545 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 469008005546 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 469008005547 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008005548 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 469008005549 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 469008005550 hypothetical protein; Provisional; Region: PRK10301 469008005551 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 469008005552 Predicted amidohydrolase [General function prediction only]; Region: COG0388 469008005553 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 469008005554 exodeoxyribonuclease X; Provisional; Region: PRK07983 469008005555 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 469008005556 active site 469008005557 catalytic site [active] 469008005558 substrate binding site [chemical binding]; other site 469008005559 protease 2; Provisional; Region: PRK10115 469008005560 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008005561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 469008005562 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 469008005563 putative metal binding site [ion binding]; other site 469008005564 hypothetical protein; Provisional; Region: PRK13680 469008005565 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 469008005566 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 469008005567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008005568 ATP-grasp domain; Region: ATP-grasp; pfam02222 469008005569 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 469008005570 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008005571 active site 469008005572 intersubunit interface [polypeptide binding]; other site 469008005573 catalytic residue [active] 469008005574 phosphogluconate dehydratase; Validated; Region: PRK09054 469008005575 6-phosphogluconate dehydratase; Region: edd; TIGR01196 469008005576 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 469008005577 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 469008005578 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 469008005579 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 469008005580 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008005581 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 469008005582 putative active site [active] 469008005583 pyruvate kinase; Provisional; Region: PRK05826 469008005584 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 469008005585 domain interfaces; other site 469008005586 active site 469008005587 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008005588 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008005589 putative acyl-acceptor binding pocket; other site 469008005590 putative peptidase; Provisional; Region: PRK11649 469008005591 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008005592 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008005593 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 469008005594 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 469008005595 metal binding site [ion binding]; metal-binding site 469008005596 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 469008005597 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469008005598 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469008005599 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 469008005600 ABC-ATPase subunit interface; other site 469008005601 dimer interface [polypeptide binding]; other site 469008005602 putative PBP binding regions; other site 469008005603 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 469008005604 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 469008005605 Walker A motif; other site 469008005606 ATP binding site [chemical binding]; other site 469008005607 Walker B motif; other site 469008005608 arginine finger; other site 469008005609 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 469008005610 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 469008005611 RuvA N terminal domain; Region: RuvA_N; pfam01330 469008005612 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 469008005613 hypothetical protein; Provisional; Region: PRK11470 469008005614 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 469008005615 active site 469008005616 putative DNA-binding cleft [nucleotide binding]; other site 469008005617 dimer interface [polypeptide binding]; other site 469008005618 hypothetical protein; Validated; Region: PRK00110 469008005619 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 469008005620 nudix motif; other site 469008005621 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 469008005622 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 469008005623 dimer interface [polypeptide binding]; other site 469008005624 anticodon binding site; other site 469008005625 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 469008005626 homodimer interface [polypeptide binding]; other site 469008005627 motif 1; other site 469008005628 active site 469008005629 motif 2; other site 469008005630 GAD domain; Region: GAD; pfam02938 469008005631 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 469008005632 motif 3; other site 469008005633 Isochorismatase family; Region: Isochorismatase; pfam00857 469008005634 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 469008005635 catalytic triad [active] 469008005636 conserved cis-peptide bond; other site 469008005637 hypothetical protein; Provisional; Region: PRK10302 469008005638 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 469008005639 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 469008005640 S-adenosylmethionine binding site [chemical binding]; other site 469008005641 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 469008005642 S-adenosylmethionine binding site [chemical binding]; other site 469008005643 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008005644 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 469008005645 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 469008005646 molybdopterin cofactor binding site [chemical binding]; other site 469008005647 substrate binding site [chemical binding]; other site 469008005648 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 469008005649 molybdopterin cofactor binding site; other site 469008005650 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 469008005651 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 469008005652 CutC family; Region: CutC; cl01218 469008005653 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 469008005654 putative metal binding site [ion binding]; other site 469008005655 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 469008005656 arginyl-tRNA synthetase; Region: argS; TIGR00456 469008005657 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 469008005658 active site 469008005659 HIGH motif; other site 469008005660 KMSK motif region; other site 469008005661 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 469008005662 tRNA binding surface [nucleotide binding]; other site 469008005663 anticodon binding site; other site 469008005664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 469008005665 Flagellar protein FlhE; Region: FlhE; pfam06366 469008005666 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 469008005667 FHIPEP family; Region: FHIPEP; pfam00771 469008005668 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 469008005669 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 469008005670 chemotaxis regulator CheZ; Provisional; Region: PRK11166 469008005671 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 469008005672 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 469008005673 active site 469008005674 phosphorylation site [posttranslational modification] 469008005675 intermolecular recognition site; other site 469008005676 dimerization interface [polypeptide binding]; other site 469008005677 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 469008005678 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 469008005679 active site 469008005680 phosphorylation site [posttranslational modification] 469008005681 intermolecular recognition site; other site 469008005682 dimerization interface [polypeptide binding]; other site 469008005683 CheB methylesterase; Region: CheB_methylest; pfam01339 469008005684 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 469008005685 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 469008005686 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 469008005687 S-adenosylmethionine binding site [chemical binding]; other site 469008005688 methyl-accepting protein IV; Provisional; Region: PRK09793 469008005689 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008005690 dimer interface [polypeptide binding]; other site 469008005691 ligand binding site [chemical binding]; other site 469008005692 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 469008005693 dimerization interface [polypeptide binding]; other site 469008005694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008005695 dimer interface [polypeptide binding]; other site 469008005696 putative CheW interface [polypeptide binding]; other site 469008005697 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 469008005698 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008005699 dimer interface [polypeptide binding]; other site 469008005700 ligand binding site [chemical binding]; other site 469008005701 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 469008005702 dimerization interface [polypeptide binding]; other site 469008005703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008005704 dimer interface [polypeptide binding]; other site 469008005705 putative CheW interface [polypeptide binding]; other site 469008005706 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 469008005707 putative CheA interaction surface; other site 469008005708 chemotaxis protein CheA; Provisional; Region: PRK10547 469008005709 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 469008005710 putative binding surface; other site 469008005711 active site 469008005712 CheY binding; Region: CheY-binding; pfam09078 469008005713 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 469008005714 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 469008005715 ATP binding site [chemical binding]; other site 469008005716 Mg2+ binding site [ion binding]; other site 469008005717 G-X-G motif; other site 469008005718 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 469008005719 flagellar motor protein MotB; Validated; Region: motB; PRK09041 469008005720 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 469008005721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008005722 ligand binding site [chemical binding]; other site 469008005723 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 469008005724 flagellar motor protein MotA; Validated; Region: PRK09110 469008005725 transcriptional activator FlhC; Provisional; Region: PRK12722 469008005726 transcriptional activator FlhD; Provisional; Region: PRK02909 469008005727 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 469008005728 Ligand Binding Site [chemical binding]; other site 469008005729 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 469008005730 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 469008005731 active site 469008005732 homotetramer interface [polypeptide binding]; other site 469008005733 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 469008005734 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 469008005735 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 469008005736 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008005737 TM-ABC transporter signature motif; other site 469008005738 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 469008005739 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008005740 Walker A/P-loop; other site 469008005741 ATP binding site [chemical binding]; other site 469008005742 Q-loop/lid; other site 469008005743 ABC transporter signature motif; other site 469008005744 Walker B; other site 469008005745 D-loop; other site 469008005746 H-loop/switch region; other site 469008005747 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008005748 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 469008005749 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 469008005750 ligand binding site [chemical binding]; other site 469008005751 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 469008005752 Ferritin-like domain; Region: Ferritin; pfam00210 469008005753 ferroxidase diiron center [ion binding]; other site 469008005754 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 469008005755 YecR-like lipoprotein; Region: YecR; pfam13992 469008005756 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 469008005757 Ferritin-like domain; Region: Ferritin; pfam00210 469008005758 ferroxidase diiron center [ion binding]; other site 469008005759 probable metal-binding protein; Region: matur_matur; TIGR03853 469008005760 tyrosine transporter TyrP; Provisional; Region: PRK15132 469008005761 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008005762 hypothetical protein; Provisional; Region: PRK10396 469008005763 yecA family protein; Region: ygfB_yecA; TIGR02292 469008005764 SEC-C motif; Region: SEC-C; pfam02810 469008005765 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 469008005766 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 469008005767 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469008005768 active site 469008005769 catalytic site [active] 469008005770 putative DNA binding site [nucleotide binding]; other site 469008005771 GIY-YIG motif/motif A; other site 469008005772 metal binding site [ion binding]; metal-binding site 469008005773 UvrB/uvrC motif; Region: UVR; pfam02151 469008005774 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 469008005775 Helix-hairpin-helix motif; Region: HHH; pfam00633 469008005776 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 469008005777 active site 469008005778 phosphorylation site [posttranslational modification] 469008005779 intermolecular recognition site; other site 469008005780 dimerization interface [polypeptide binding]; other site 469008005781 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 469008005782 DNA binding residues [nucleotide binding] 469008005783 dimerization interface [polypeptide binding]; other site 469008005784 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008005785 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008005786 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008005787 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008005788 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 469008005789 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 469008005790 conserved cys residue [active] 469008005791 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 469008005792 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 469008005793 dimer interface [polypeptide binding]; other site 469008005794 phosphorylation site [posttranslational modification] 469008005795 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 469008005796 ATP binding site [chemical binding]; other site 469008005797 Mg2+ binding site [ion binding]; other site 469008005798 G-X-G motif; other site 469008005799 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 469008005800 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 469008005801 active site 469008005802 phosphorylation site [posttranslational modification] 469008005803 intermolecular recognition site; other site 469008005804 dimerization interface [polypeptide binding]; other site 469008005805 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 469008005806 DNA binding site [nucleotide binding] 469008005807 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 469008005808 active site 469008005809 homotetramer interface [polypeptide binding]; other site 469008005810 TMAO/DMSO reductase; Reviewed; Region: PRK05363 469008005811 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 469008005812 Moco binding site; other site 469008005813 metal coordination site [ion binding]; other site 469008005814 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 469008005815 zinc/cadmium-binding protein; Provisional; Region: PRK10306 469008005816 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 469008005817 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 469008005818 putative invasin; Provisional; Region: PRK10177 469008005819 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008005820 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005821 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005822 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005823 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005824 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005825 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005826 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005827 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005828 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005829 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005830 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005831 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005832 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005833 shikimate transporter; Provisional; Region: PRK09952 469008005834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005835 putative substrate translocation pore; other site 469008005836 AMP nucleosidase; Provisional; Region: PRK08292 469008005837 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 469008005838 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 469008005839 hypothetical protein; Provisional; Region: PRK12378 469008005840 MATE family multidrug exporter; Provisional; Region: PRK10189 469008005841 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469008005842 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 469008005843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005844 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 469008005845 putative substrate binding site [chemical binding]; other site 469008005846 dimerization interface [polypeptide binding]; other site 469008005847 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 469008005848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005849 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 469008005850 putative dimerization interface [polypeptide binding]; other site 469008005851 L,D-transpeptidase; Provisional; Region: PRK10190 469008005852 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008005853 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 469008005854 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 469008005855 putative dimer interface [polypeptide binding]; other site 469008005856 active site pocket [active] 469008005857 putative cataytic base [active] 469008005858 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 469008005859 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 469008005860 homotrimer interface [polypeptide binding]; other site 469008005861 Walker A motif; other site 469008005862 GTP binding site [chemical binding]; other site 469008005863 Walker B motif; other site 469008005864 cryptic prophage, CP4-44-like 469008005865 Integrase core domain; Region: rve; pfam00665 469008005866 Integrase core domain; Region: rve_3; pfam13683 469008005867 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 469008005868 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 469008005869 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 469008005870 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 469008005871 hypothetical protein; Provisional; Region: PRK05423 469008005872 Predicted membrane protein [Function unknown]; Region: COG1289 469008005873 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008005874 DNA gyrase inhibitor; Provisional; Region: PRK10016 469008005875 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 469008005876 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008005877 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 469008005878 exonuclease I; Provisional; Region: sbcB; PRK11779 469008005879 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 469008005880 active site 469008005881 catalytic site [active] 469008005882 substrate binding site [chemical binding]; other site 469008005883 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 469008005884 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 469008005885 CPxP motif; other site 469008005886 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 469008005887 Sulphur transport; Region: Sulf_transp; pfam04143 469008005888 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469008005889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005890 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008005891 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 469008005892 dimerization interface [polypeptide binding]; other site 469008005893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008005894 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 469008005895 putative NAD(P) binding site [chemical binding]; other site 469008005896 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 469008005897 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 469008005898 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 469008005899 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 469008005900 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 469008005901 NAD binding site [chemical binding]; other site 469008005902 dimerization interface [polypeptide binding]; other site 469008005903 product binding site; other site 469008005904 substrate binding site [chemical binding]; other site 469008005905 zinc binding site [ion binding]; other site 469008005906 catalytic residues [active] 469008005907 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 469008005908 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 469008005909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008005910 homodimer interface [polypeptide binding]; other site 469008005911 catalytic residue [active] 469008005912 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 469008005913 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 469008005914 active site 469008005915 motif I; other site 469008005916 motif II; other site 469008005917 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 469008005918 putative active site pocket [active] 469008005919 4-fold oligomerization interface [polypeptide binding]; other site 469008005920 metal binding residues [ion binding]; metal-binding site 469008005921 3-fold/trimer interface [polypeptide binding]; other site 469008005922 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 469008005923 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 469008005924 putative active site [active] 469008005925 oxyanion strand; other site 469008005926 catalytic triad [active] 469008005927 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 469008005928 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 469008005929 catalytic residues [active] 469008005930 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 469008005931 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 469008005932 substrate binding site [chemical binding]; other site 469008005933 glutamase interaction surface [polypeptide binding]; other site 469008005934 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 469008005935 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 469008005936 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 469008005937 metal binding site [ion binding]; metal-binding site 469008005938 chain length determinant protein WzzB; Provisional; Region: PRK15471 469008005939 Chain length determinant protein; Region: Wzz; pfam02706 469008005940 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 469008005941 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469008005942 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 469008005943 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 469008005944 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008005945 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 469008005946 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 469008005947 phosphomannomutase CpsG; Provisional; Region: PRK15414 469008005948 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 469008005949 active site 469008005950 substrate binding site [chemical binding]; other site 469008005951 metal binding site [ion binding]; metal-binding site 469008005952 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 469008005953 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 469008005954 Substrate binding site; other site 469008005955 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 469008005956 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008005957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008005958 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008005959 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008005960 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469008005961 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 469008005962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469008005963 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 469008005964 ornithine decarboxylase SpeF; Region: ODC_inducible; TIGR04301 469008005965 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 469008005966 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 469008005967 trimer interface [polypeptide binding]; other site 469008005968 active site 469008005969 substrate binding site [chemical binding]; other site 469008005970 CoA binding site [chemical binding]; other site 469008005971 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008005972 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 469008005973 inhibitor-cofactor binding pocket; inhibition site 469008005974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008005975 catalytic residue [active] 469008005976 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 469008005977 colanic acid exporter; Provisional; Region: PRK10459 469008005978 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 469008005979 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 469008005980 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 469008005981 substrate binding site; other site 469008005982 tetramer interface; other site 469008005983 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 469008005984 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 469008005985 NADP binding site [chemical binding]; other site 469008005986 active site 469008005987 putative substrate binding site [chemical binding]; other site 469008005988 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 469008005989 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469008005990 NAD binding site [chemical binding]; other site 469008005991 substrate binding site [chemical binding]; other site 469008005992 homodimer interface [polypeptide binding]; other site 469008005993 active site 469008005994 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469008005995 active site 469008005996 tetramer interface; other site 469008005997 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 469008005998 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 469008005999 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 469008006000 putative ADP-binding pocket [chemical binding]; other site 469008006001 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 469008006002 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 469008006003 colanic acid exporter; Provisional; Region: PRK10459 469008006004 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 469008006005 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 469008006006 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 469008006007 phosphomannomutase CpsG; Provisional; Region: PRK15414 469008006008 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 469008006009 active site 469008006010 substrate binding site [chemical binding]; other site 469008006011 metal binding site [ion binding]; metal-binding site 469008006012 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 469008006013 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 469008006014 Substrate binding site; other site 469008006015 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 469008006016 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 469008006017 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 469008006018 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 469008006019 active site 469008006020 GDP-Mannose binding site [chemical binding]; other site 469008006021 dimer interface [polypeptide binding]; other site 469008006022 modified nudix motif 469008006023 metal binding site [ion binding]; metal-binding site 469008006024 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 469008006025 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 469008006026 NADP binding site [chemical binding]; other site 469008006027 active site 469008006028 putative substrate binding site [chemical binding]; other site 469008006029 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 469008006030 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 469008006031 NADP-binding site; other site 469008006032 homotetramer interface [polypeptide binding]; other site 469008006033 substrate binding site [chemical binding]; other site 469008006034 homodimer interface [polypeptide binding]; other site 469008006035 active site 469008006036 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 469008006037 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 469008006038 putative trimer interface [polypeptide binding]; other site 469008006039 putative active site [active] 469008006040 putative substrate binding site [chemical binding]; other site 469008006041 putative CoA binding site [chemical binding]; other site 469008006042 putative glycosyl transferase; Provisional; Region: PRK10063 469008006043 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 469008006044 metal-binding site 469008006045 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 469008006046 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 469008006047 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 469008006048 putative acyl transferase; Provisional; Region: PRK10191 469008006049 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 469008006050 trimer interface [polypeptide binding]; other site 469008006051 active site 469008006052 substrate binding site [chemical binding]; other site 469008006053 CoA binding site [chemical binding]; other site 469008006054 putative glycosyl transferase; Provisional; Region: PRK10018 469008006055 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 469008006056 active site 469008006057 tyrosine kinase; Provisional; Region: PRK11519 469008006058 Chain length determinant protein; Region: Wzz; pfam02706 469008006059 Chain length determinant protein; Region: Wzz; cl15801 469008006060 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008006061 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 469008006062 Low molecular weight phosphatase family; Region: LMWPc; cd00115 469008006063 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 469008006064 active site 469008006065 polysaccharide export protein Wza; Provisional; Region: PRK15078 469008006066 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008006067 SLBB domain; Region: SLBB; pfam10531 469008006068 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008006069 FOG: CBS domain [General function prediction only]; Region: COG0517 469008006070 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 469008006071 Transporter associated domain; Region: CorC_HlyC; smart01091 469008006072 putative assembly protein; Provisional; Region: PRK10833 469008006073 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008006074 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469008006075 trimer interface [polypeptide binding]; other site 469008006076 active site 469008006077 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 469008006078 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 469008006079 ATP-binding site [chemical binding]; other site 469008006080 Sugar specificity; other site 469008006081 Pyrimidine base specificity; other site 469008006082 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 469008006083 putative diguanylate cyclase; Provisional; Region: PRK09776 469008006084 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 469008006085 putative active site [active] 469008006086 heme pocket [chemical binding]; other site 469008006087 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 469008006088 putative active site [active] 469008006089 heme pocket [chemical binding]; other site 469008006090 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 469008006091 putative active site [active] 469008006092 heme pocket [chemical binding]; other site 469008006093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008006094 metal binding site [ion binding]; metal-binding site 469008006095 active site 469008006096 I-site; other site 469008006097 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 469008006098 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 469008006099 AlkA N-terminal domain; Region: AlkA_N; smart01009 469008006100 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008006101 minor groove reading motif; other site 469008006102 helix-hairpin-helix signature motif; other site 469008006103 substrate binding pocket [chemical binding]; other site 469008006104 active site 469008006105 putative chaperone; Provisional; Region: PRK11678 469008006106 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 469008006107 nucleotide binding site [chemical binding]; other site 469008006108 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008006109 SBD interface [polypeptide binding]; other site 469008006110 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 469008006111 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 469008006112 substrate binding site [chemical binding]; other site 469008006113 activation loop (A-loop); other site 469008006114 Y-family of DNA polymerases; Region: PolY; cl12025 469008006115 Protein phosphatase 2C; Region: PP2C_2; pfam13672 469008006116 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 469008006117 metal ion-dependent adhesion site (MIDAS); other site 469008006118 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 469008006119 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008006120 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008006121 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 469008006122 Protein export membrane protein; Region: SecD_SecF; cl14618 469008006123 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 469008006124 putative transporter; Provisional; Region: PRK10504 469008006125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006126 putative substrate translocation pore; other site 469008006127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006128 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 469008006129 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 469008006130 dimerization interface [polypeptide binding]; other site 469008006131 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 469008006132 dimer interface [polypeptide binding]; other site 469008006133 phosphorylation site [posttranslational modification] 469008006134 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 469008006135 ATP binding site [chemical binding]; other site 469008006136 Mg2+ binding site [ion binding]; other site 469008006137 G-X-G motif; other site 469008006138 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 469008006139 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 469008006140 active site 469008006141 phosphorylation site [posttranslational modification] 469008006142 intermolecular recognition site; other site 469008006143 dimerization interface [polypeptide binding]; other site 469008006144 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 469008006145 DNA binding site [nucleotide binding] 469008006146 Uncharacterized conserved protein [Function unknown]; Region: COG3422 469008006147 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 469008006148 putative protease; Provisional; Region: PRK15452 469008006149 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008006150 lipid kinase; Reviewed; Region: PRK13054 469008006151 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 469008006152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006153 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006154 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006155 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006156 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 469008006157 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 469008006158 putative NAD(P) binding site [chemical binding]; other site 469008006159 catalytic Zn binding site [ion binding]; other site 469008006160 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 469008006161 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 469008006162 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 469008006163 active site 469008006164 P-loop; other site 469008006165 phosphorylation site [posttranslational modification] 469008006166 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 469008006167 active site 469008006168 phosphorylation site [posttranslational modification] 469008006169 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 469008006170 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 469008006171 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008006172 intersubunit interface [polypeptide binding]; other site 469008006173 active site 469008006174 zinc binding site [ion binding]; other site 469008006175 Na+ binding site [ion binding]; other site 469008006176 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 469008006177 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 469008006178 putative active site; other site 469008006179 catalytic residue [active] 469008006180 nucleoside transporter; Region: 2A0110; TIGR00889 469008006181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006182 putative substrate translocation pore; other site 469008006183 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 469008006184 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008006185 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 469008006186 substrate binding site [chemical binding]; other site 469008006187 ATP binding site [chemical binding]; other site 469008006188 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 469008006189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008006190 DNA-binding site [nucleotide binding]; DNA binding site 469008006191 UTRA domain; Region: UTRA; pfam07702 469008006192 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 469008006193 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 469008006194 active site 469008006195 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 469008006196 dimer interface [polypeptide binding]; other site 469008006197 substrate binding site [chemical binding]; other site 469008006198 ATP binding site [chemical binding]; other site 469008006199 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 469008006200 substrate binding site [chemical binding]; other site 469008006201 multimerization interface [polypeptide binding]; other site 469008006202 ATP binding site [chemical binding]; other site 469008006203 Helix-turn-helix domain; Region: HTH_36; pfam13730 469008006204 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006206 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006207 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006208 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 469008006209 antiporter inner membrane protein; Provisional; Region: PRK11670 469008006210 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 469008006211 Walker A motif; other site 469008006212 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 469008006213 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 469008006214 active site 469008006215 HIGH motif; other site 469008006216 KMSKS motif; other site 469008006217 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 469008006218 tRNA binding surface [nucleotide binding]; other site 469008006219 anticodon binding site; other site 469008006220 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 469008006221 dimer interface [polypeptide binding]; other site 469008006222 putative tRNA-binding site [nucleotide binding]; other site 469008006223 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469008006224 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 469008006225 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 469008006226 MoxR-like ATPases [General function prediction only]; Region: COG0714 469008006227 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 469008006228 Walker A motif; other site 469008006229 ATP binding site [chemical binding]; other site 469008006230 Walker B motif; other site 469008006231 arginine finger; other site 469008006232 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 469008006233 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 469008006234 metal ion-dependent adhesion site (MIDAS); other site 469008006235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 469008006236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 469008006237 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469008006238 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469008006239 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 469008006240 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 469008006241 active site 469008006242 phosphorylation site [posttranslational modification] 469008006243 intermolecular recognition site; other site 469008006244 dimerization interface [polypeptide binding]; other site 469008006245 LytTr DNA-binding domain; Region: LytTR; pfam04397 469008006246 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469008006247 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469008006248 GAF domain; Region: GAF; pfam01590 469008006249 Histidine kinase; Region: His_kinase; pfam06580 469008006250 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 469008006251 ATP binding site [chemical binding]; other site 469008006252 Mg2+ binding site [ion binding]; other site 469008006253 G-X-G motif; other site 469008006254 transcriptional regulator MirA; Provisional; Region: PRK15043 469008006255 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 469008006256 DNA binding residues [nucleotide binding] 469008006257 hypothetical protein; Provisional; Region: PRK13681 469008006258 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008006259 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 469008006260 dimer interface [polypeptide binding]; other site 469008006261 conserved gate region; other site 469008006262 putative PBP binding loops; other site 469008006263 ABC-ATPase subunit interface; other site 469008006264 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 469008006265 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 469008006266 Walker A/P-loop; other site 469008006267 ATP binding site [chemical binding]; other site 469008006268 Q-loop/lid; other site 469008006269 ABC transporter signature motif; other site 469008006270 Walker B; other site 469008006271 D-loop; other site 469008006272 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 469008006273 H-loop/switch region; other site 469008006274 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 469008006275 dimer interface [polypeptide binding]; other site 469008006276 conserved gate region; other site 469008006277 ABC-ATPase subunit interface; other site 469008006278 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 469008006279 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 469008006280 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 469008006281 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 469008006282 D-lactate dehydrogenase; Provisional; Region: PRK11183 469008006283 FAD binding domain; Region: FAD_binding_4; pfam01565 469008006284 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 469008006285 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 469008006286 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 469008006287 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 469008006288 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008006289 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008006290 oxidoreductase; Provisional; Region: PRK12743 469008006291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008006292 NAD(P) binding site [chemical binding]; other site 469008006293 active site 469008006294 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 469008006295 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 469008006296 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 469008006297 FMN binding site [chemical binding]; other site 469008006298 active site 469008006299 catalytic residues [active] 469008006300 substrate binding site [chemical binding]; other site 469008006301 hypothetical protein; Provisional; Region: PRK01821 469008006302 hypothetical protein; Provisional; Region: PRK10711 469008006303 cytidine deaminase; Provisional; Region: PRK09027 469008006304 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 469008006305 active site 469008006306 catalytic motif [active] 469008006307 Zn binding site [ion binding]; other site 469008006308 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 469008006309 active site 469008006310 catalytic motif [active] 469008006311 Zn binding site [ion binding]; other site 469008006312 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 469008006313 putative active site [active] 469008006314 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 469008006315 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 469008006316 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008006317 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008006318 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 469008006319 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 469008006320 homodimer interface [polypeptide binding]; other site 469008006321 active site 469008006322 FMN binding site [chemical binding]; other site 469008006323 substrate binding site [chemical binding]; other site 469008006324 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006325 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008006326 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 469008006327 TM-ABC transporter signature motif; other site 469008006328 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008006329 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 469008006330 Walker A/P-loop; other site 469008006331 ATP binding site [chemical binding]; other site 469008006332 Q-loop/lid; other site 469008006333 ABC transporter signature motif; other site 469008006334 Walker B; other site 469008006335 D-loop; other site 469008006336 H-loop/switch region; other site 469008006337 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008006338 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 469008006339 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008006340 DNA binding site [nucleotide binding] 469008006341 domain linker motif; other site 469008006342 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 469008006343 dimerization interface (closed form) [polypeptide binding]; other site 469008006344 ligand binding site [chemical binding]; other site 469008006345 Predicted membrane protein [Function unknown]; Region: COG2311 469008006346 hypothetical protein; Provisional; Region: PRK10835 469008006347 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 469008006348 homodecamer interface [polypeptide binding]; other site 469008006349 GTP cyclohydrolase I; Provisional; Region: PLN03044 469008006350 active site 469008006351 putative catalytic site residues [active] 469008006352 zinc binding site [ion binding]; other site 469008006353 GTP-CH-I/GFRP interaction surface; other site 469008006354 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 469008006355 S-formylglutathione hydrolase; Region: PLN02442 469008006356 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 469008006357 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 469008006358 N-terminal plug; other site 469008006359 ligand-binding site [chemical binding]; other site 469008006360 lysine transporter; Provisional; Region: PRK10836 469008006361 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 469008006362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008006363 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 469008006364 putative dimerization interface [polypeptide binding]; other site 469008006365 conserved hypothetical integral membrane protein; Region: TIGR00698 469008006366 endonuclease IV; Provisional; Region: PRK01060 469008006367 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 469008006368 AP (apurinic/apyrimidinic) site pocket; other site 469008006369 DNA interaction; other site 469008006370 Metal-binding active site; metal-binding site 469008006371 putative kinase; Provisional; Region: PRK09954 469008006372 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 469008006373 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 469008006374 substrate binding site [chemical binding]; other site 469008006375 ATP binding site [chemical binding]; other site 469008006376 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008006377 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008006378 Nucleoside recognition; Region: Gate; pfam07670 469008006379 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008006380 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 469008006381 active site 469008006382 tetramer interface [polypeptide binding]; other site 469008006383 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 469008006384 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 469008006385 ligand binding site [chemical binding]; other site 469008006386 flexible hinge region; other site 469008006387 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 469008006388 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008006389 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008006390 Nucleoside recognition; Region: Gate; pfam07670 469008006391 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008006392 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 469008006393 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 469008006394 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008006395 substrate binding site [chemical binding]; other site 469008006396 ATP binding site [chemical binding]; other site 469008006397 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 469008006398 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 469008006399 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 469008006400 active site 469008006401 P-loop; other site 469008006402 phosphorylation site [posttranslational modification] 469008006403 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 469008006404 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 469008006405 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 469008006406 putative substrate binding site [chemical binding]; other site 469008006407 putative ATP binding site [chemical binding]; other site 469008006408 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 469008006409 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 469008006410 active site 469008006411 phosphorylation site [posttranslational modification] 469008006412 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 469008006413 dimerization domain swap beta strand [polypeptide binding]; other site 469008006414 regulatory protein interface [polypeptide binding]; other site 469008006415 active site 469008006416 regulatory phosphorylation site [posttranslational modification]; other site 469008006417 sugar efflux transporter B; Provisional; Region: PRK15011 469008006418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006419 putative substrate translocation pore; other site 469008006420 Flagellin N-methylase; Region: FliB; pfam03692 469008006421 elongation factor P; Provisional; Region: PRK04542 469008006422 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469008006423 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 469008006424 RNA binding site [nucleotide binding]; other site 469008006425 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 469008006426 RNA binding site [nucleotide binding]; other site 469008006427 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 469008006428 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008006429 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008006430 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 469008006431 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 469008006432 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 469008006433 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008006434 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 469008006435 active site 469008006436 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 469008006437 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008006438 phage resistance protein; Provisional; Region: PRK10551 469008006439 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008006440 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 469008006441 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 469008006442 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 469008006443 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 469008006444 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 469008006445 dimer interface [polypeptide binding]; other site 469008006446 conserved gate region; other site 469008006447 putative PBP binding loops; other site 469008006448 ABC-ATPase subunit interface; other site 469008006449 microcin C ABC transporter permease; Provisional; Region: PRK15021 469008006450 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 469008006451 dimer interface [polypeptide binding]; other site 469008006452 conserved gate region; other site 469008006453 ABC-ATPase subunit interface; other site 469008006454 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 469008006455 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008006456 Walker A/P-loop; other site 469008006457 ATP binding site [chemical binding]; other site 469008006458 Q-loop/lid; other site 469008006459 ABC transporter signature motif; other site 469008006460 Walker B; other site 469008006461 D-loop; other site 469008006462 H-loop/switch region; other site 469008006463 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008006464 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008006465 Walker A/P-loop; other site 469008006466 ATP binding site [chemical binding]; other site 469008006467 Q-loop/lid; other site 469008006468 ABC transporter signature motif; other site 469008006469 Walker B; other site 469008006470 D-loop; other site 469008006471 H-loop/switch region; other site 469008006472 hypothetical protein; Provisional; Region: PRK11835 469008006473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006474 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 469008006475 putative substrate translocation pore; other site 469008006476 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 469008006477 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 469008006478 RNA binding surface [nucleotide binding]; other site 469008006479 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 469008006480 active site 469008006481 uracil binding [chemical binding]; other site 469008006482 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 469008006483 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 469008006484 ATP binding site [chemical binding]; other site 469008006485 putative Mg++ binding site [ion binding]; other site 469008006486 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 469008006487 nucleotide binding region [chemical binding]; other site 469008006488 ATP-binding site [chemical binding]; other site 469008006489 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 469008006490 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 469008006491 5S rRNA interface [nucleotide binding]; other site 469008006492 CTC domain interface [polypeptide binding]; other site 469008006493 L16 interface [polypeptide binding]; other site 469008006494 Nucleoid-associated protein [General function prediction only]; Region: COG3081 469008006495 nucleoid-associated protein NdpA; Validated; Region: PRK00378 469008006496 hypothetical protein; Provisional; Region: PRK13689 469008006497 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 469008006498 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 469008006499 Sulfatase; Region: Sulfatase; pfam00884 469008006500 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 469008006501 hypothetical protein; Provisional; Region: PRK09945 469008006502 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 469008006503 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008006504 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008006505 transcriptional regulator NarP; Provisional; Region: PRK10403 469008006506 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 469008006507 active site 469008006508 phosphorylation site [posttranslational modification] 469008006509 intermolecular recognition site; other site 469008006510 dimerization interface [polypeptide binding]; other site 469008006511 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 469008006512 DNA binding residues [nucleotide binding] 469008006513 dimerization interface [polypeptide binding]; other site 469008006514 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 469008006515 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 469008006516 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 469008006517 binding surface 469008006518 TPR motif; other site 469008006519 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 469008006520 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 469008006521 catalytic residues [active] 469008006522 central insert; other site 469008006523 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 469008006524 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 469008006525 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 469008006526 heme exporter protein CcmC; Region: ccmC; TIGR01191 469008006527 heme exporter protein CcmB; Region: ccmB; TIGR01190 469008006528 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 469008006529 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 469008006530 Walker A/P-loop; other site 469008006531 ATP binding site [chemical binding]; other site 469008006532 Q-loop/lid; other site 469008006533 ABC transporter signature motif; other site 469008006534 Walker B; other site 469008006535 D-loop; other site 469008006536 H-loop/switch region; other site 469008006537 cytochrome c-type protein NapC; Provisional; Region: PRK10617 469008006538 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 469008006539 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 469008006540 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 469008006541 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008006542 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008006543 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 469008006544 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 469008006545 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 469008006546 [4Fe-4S] binding site [ion binding]; other site 469008006547 molybdopterin cofactor binding site; other site 469008006548 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 469008006549 molybdopterin cofactor binding site; other site 469008006550 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 469008006551 ferredoxin-type protein; Provisional; Region: PRK10194 469008006552 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 469008006553 secondary substrate binding site; other site 469008006554 primary substrate binding site; other site 469008006555 inhibition loop; other site 469008006556 dimerization interface [polypeptide binding]; other site 469008006557 malate:quinone oxidoreductase; Validated; Region: PRK05257 469008006558 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 469008006559 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 469008006560 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 469008006561 Walker A/P-loop; other site 469008006562 ATP binding site [chemical binding]; other site 469008006563 Q-loop/lid; other site 469008006564 ABC transporter signature motif; other site 469008006565 Walker B; other site 469008006566 D-loop; other site 469008006567 H-loop/switch region; other site 469008006568 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 469008006569 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 469008006570 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 469008006571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008006572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008006573 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469008006574 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 469008006575 DNA binding site [nucleotide binding] 469008006576 active site 469008006577 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 469008006578 ApbE family; Region: ApbE; pfam02424 469008006579 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 469008006580 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008006581 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006583 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006584 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006585 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 469008006586 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 469008006587 dimer interface [polypeptide binding]; other site 469008006588 phosphorylation site [posttranslational modification] 469008006589 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 469008006590 ATP binding site [chemical binding]; other site 469008006591 Mg2+ binding site [ion binding]; other site 469008006592 G-X-G motif; other site 469008006593 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 469008006594 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 469008006595 active site 469008006596 phosphorylation site [posttranslational modification] 469008006597 intermolecular recognition site; other site 469008006598 dimerization interface [polypeptide binding]; other site 469008006599 sensory histidine kinase AtoS; Provisional; Region: PRK11360 469008006600 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 469008006601 putative active site [active] 469008006602 heme pocket [chemical binding]; other site 469008006603 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 469008006604 dimer interface [polypeptide binding]; other site 469008006605 phosphorylation site [posttranslational modification] 469008006606 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 469008006607 ATP binding site [chemical binding]; other site 469008006608 Mg2+ binding site [ion binding]; other site 469008006609 G-X-G motif; other site 469008006610 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 469008006611 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 469008006612 active site 469008006613 phosphorylation site [posttranslational modification] 469008006614 intermolecular recognition site; other site 469008006615 dimerization interface [polypeptide binding]; other site 469008006616 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 469008006617 Walker A motif; other site 469008006618 ATP binding site [chemical binding]; other site 469008006619 Walker B motif; other site 469008006620 arginine finger; other site 469008006621 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008006622 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 469008006623 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 469008006624 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 469008006625 putative acyltransferase; Provisional; Region: PRK05790 469008006626 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 469008006627 dimer interface [polypeptide binding]; other site 469008006628 active site 469008006629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 469008006630 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 469008006631 Predicted secreted protein [Function unknown]; Region: COG5445 469008006632 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 469008006633 Predicted secreted protein [Function unknown]; Region: COG5445 469008006634 Stage II sporulation protein; Region: SpoIID; pfam08486 469008006635 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 469008006636 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469008006637 MG2 domain; Region: A2M_N; pfam01835 469008006638 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 469008006639 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469008006640 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 469008006641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 469008006642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 469008006643 DNA gyrase subunit A; Validated; Region: PRK05560 469008006644 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 469008006645 CAP-like domain; other site 469008006646 active site 469008006647 primary dimer interface [polypeptide binding]; other site 469008006648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006654 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 469008006655 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 469008006656 S-adenosylmethionine binding site [chemical binding]; other site 469008006657 adhesin; Provisional; Region: PRK09752 469008006658 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 469008006659 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008006660 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 469008006661 ATP cone domain; Region: ATP-cone; pfam03477 469008006662 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469008006663 active site 469008006664 dimer interface [polypeptide binding]; other site 469008006665 catalytic residues [active] 469008006666 effector binding site; other site 469008006667 R2 peptide binding site; other site 469008006668 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469008006669 dimer interface [polypeptide binding]; other site 469008006670 putative radical transfer pathway; other site 469008006671 diiron center [ion binding]; other site 469008006672 tyrosyl radical; other site 469008006673 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008006674 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 469008006675 catalytic loop [active] 469008006676 iron binding site [ion binding]; other site 469008006677 hypothetical protein; Provisional; Region: PRK09902 469008006678 hypothetical protein; Provisional; Region: PRK09729 469008006679 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 469008006680 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 469008006681 active site 469008006682 catalytic site [active] 469008006683 metal binding site [ion binding]; metal-binding site 469008006684 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 469008006685 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006686 putative substrate translocation pore; other site 469008006687 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 469008006688 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008006689 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008006690 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 469008006691 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 469008006692 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 469008006693 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 469008006694 Cysteine-rich domain; Region: CCG; pfam02754 469008006695 Cysteine-rich domain; Region: CCG; pfam02754 469008006696 hypothetical protein; Provisional; Region: PRK09956 469008006697 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008006698 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 469008006699 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 469008006700 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006701 putative substrate translocation pore; other site 469008006702 L-rhamnonate dehydratase; Provisional; Region: PRK15440 469008006703 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 469008006704 putative active site pocket [active] 469008006705 putative metal binding site [ion binding]; other site 469008006706 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008006707 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008006708 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008006709 hypothetical protein; Provisional; Region: PRK03673 469008006710 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 469008006711 putative MPT binding site; other site 469008006712 Competence-damaged protein; Region: CinA; cl00666 469008006713 YfaZ precursor; Region: YfaZ; pfam07437 469008006714 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 469008006715 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 469008006716 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 469008006717 catalytic core [active] 469008006718 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008006719 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 469008006720 inhibitor-cofactor binding pocket; inhibition site 469008006721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006722 catalytic residue [active] 469008006723 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 469008006724 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 469008006725 Ligand binding site; other site 469008006726 Putative Catalytic site; other site 469008006727 DXD motif; other site 469008006728 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 469008006729 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 469008006730 substrate binding site [chemical binding]; other site 469008006731 cosubstrate binding site; other site 469008006732 catalytic site [active] 469008006733 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 469008006734 active site 469008006735 hexamer interface [polypeptide binding]; other site 469008006736 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 469008006737 NAD binding site [chemical binding]; other site 469008006738 substrate binding site [chemical binding]; other site 469008006739 active site 469008006740 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 469008006741 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 469008006742 putative active site [active] 469008006743 putative catalytic site [active] 469008006744 putative Zn binding site [ion binding]; other site 469008006745 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 469008006746 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 469008006747 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 469008006748 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 469008006749 signal transduction protein PmrD; Provisional; Region: PRK15450 469008006750 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 469008006751 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 469008006752 acyl-activating enzyme (AAE) consensus motif; other site 469008006753 putative AMP binding site [chemical binding]; other site 469008006754 putative active site [active] 469008006755 putative CoA binding site [chemical binding]; other site 469008006756 O-succinylbenzoate synthase; Provisional; Region: PRK05105 469008006757 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 469008006758 active site 469008006759 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 469008006760 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 469008006761 substrate binding site [chemical binding]; other site 469008006762 oxyanion hole (OAH) forming residues; other site 469008006763 trimer interface [polypeptide binding]; other site 469008006764 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 469008006765 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 469008006766 nucleophilic elbow; other site 469008006767 catalytic triad; other site 469008006768 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 469008006769 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 469008006770 dimer interface [polypeptide binding]; other site 469008006771 tetramer interface [polypeptide binding]; other site 469008006772 PYR/PP interface [polypeptide binding]; other site 469008006773 TPP binding site [chemical binding]; other site 469008006774 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 469008006775 TPP-binding site; other site 469008006776 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 469008006777 isochorismate synthases; Region: isochor_syn; TIGR00543 469008006778 hypothetical protein; Provisional; Region: PRK10404 469008006779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008006780 Coenzyme A binding pocket [chemical binding]; other site 469008006781 ribonuclease BN; Region: true_RNase_BN; TIGR02649 469008006782 deubiquitinase; Provisional; Region: PRK11836 469008006783 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 469008006784 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008006785 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008006786 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008006787 putative transposase OrfB; Reviewed; Region: PHA02517 469008006788 HTH-like domain; Region: HTH_21; pfam13276 469008006789 Integrase core domain; Region: rve; pfam00665 469008006790 Integrase core domain; Region: rve_2; pfam13333 469008006791 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 469008006792 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006793 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 469008006794 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006795 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 469008006796 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 469008006797 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006798 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 469008006799 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 469008006800 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 469008006801 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006802 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006803 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 469008006804 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 469008006805 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 469008006806 catalytic loop [active] 469008006807 iron binding site [ion binding]; other site 469008006808 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 469008006809 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 469008006810 [4Fe-4S] binding site [ion binding]; other site 469008006811 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 469008006812 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 469008006813 SLBB domain; Region: SLBB; pfam10531 469008006814 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 469008006815 NADH dehydrogenase subunit E; Validated; Region: PRK07539 469008006816 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 469008006817 putative dimer interface [polypeptide binding]; other site 469008006818 [2Fe-2S] cluster binding site [ion binding]; other site 469008006819 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 469008006820 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 469008006821 NADH dehydrogenase subunit D; Validated; Region: PRK06075 469008006822 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 469008006823 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 469008006824 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 469008006825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008006826 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 469008006827 putative dimerization interface [polypeptide binding]; other site 469008006828 aminotransferase AlaT; Validated; Region: PRK09265 469008006829 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 469008006830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006831 homodimer interface [polypeptide binding]; other site 469008006832 catalytic residue [active] 469008006833 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008006834 Zn2+ binding site [ion binding]; other site 469008006835 Mg2+ binding site [ion binding]; other site 469008006836 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 469008006837 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008006838 TrkA-C domain; Region: TrkA_C; pfam02080 469008006839 TrkA-C domain; Region: TrkA_C; pfam02080 469008006840 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 469008006841 putative phosphatase; Provisional; Region: PRK11587 469008006842 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 469008006843 motif II; other site 469008006844 hypothetical protein; Validated; Region: PRK05445 469008006845 hypothetical protein; Provisional; Region: PRK01816 469008006846 propionate/acetate kinase; Provisional; Region: PRK12379 469008006847 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 469008006848 phosphate acetyltransferase; Reviewed; Region: PRK05632 469008006849 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 469008006850 DRTGG domain; Region: DRTGG; pfam07085 469008006851 phosphate acetyltransferase; Region: pta; TIGR00651 469008006852 hypothetical protein; Provisional; Region: PRK11588 469008006853 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008006854 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 469008006855 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 469008006856 nudix motif; other site 469008006857 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 469008006858 active site 469008006859 metal binding site [ion binding]; metal-binding site 469008006860 homotetramer interface [polypeptide binding]; other site 469008006861 glutathione S-transferase; Provisional; Region: PRK15113 469008006862 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 469008006863 C-terminal domain interface [polypeptide binding]; other site 469008006864 GSH binding site (G-site) [chemical binding]; other site 469008006865 dimer interface [polypeptide binding]; other site 469008006866 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 469008006867 N-terminal domain interface [polypeptide binding]; other site 469008006868 putative dimer interface [polypeptide binding]; other site 469008006869 putative substrate binding pocket (H-site) [chemical binding]; other site 469008006870 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 469008006871 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 469008006872 C-terminal domain interface [polypeptide binding]; other site 469008006873 GSH binding site (G-site) [chemical binding]; other site 469008006874 dimer interface [polypeptide binding]; other site 469008006875 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 469008006876 N-terminal domain interface [polypeptide binding]; other site 469008006877 putative dimer interface [polypeptide binding]; other site 469008006878 active site 469008006879 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 469008006880 homooctamer interface [polypeptide binding]; other site 469008006881 active site 469008006882 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 469008006883 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 469008006884 putative NAD(P) binding site [chemical binding]; other site 469008006885 putative active site [active] 469008006886 putative transposase; Provisional; Region: PRK09857 469008006887 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008006888 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 469008006889 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008006890 Walker A/P-loop; other site 469008006891 ATP binding site [chemical binding]; other site 469008006892 Q-loop/lid; other site 469008006893 ABC transporter signature motif; other site 469008006894 Walker B; other site 469008006895 D-loop; other site 469008006896 H-loop/switch region; other site 469008006897 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 469008006898 dimer interface [polypeptide binding]; other site 469008006899 conserved gate region; other site 469008006900 putative PBP binding loops; other site 469008006901 ABC-ATPase subunit interface; other site 469008006902 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008006903 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 469008006904 dimer interface [polypeptide binding]; other site 469008006905 conserved gate region; other site 469008006906 putative PBP binding loops; other site 469008006907 ABC-ATPase subunit interface; other site 469008006908 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 469008006909 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 469008006910 substrate binding pocket [chemical binding]; other site 469008006911 membrane-bound complex binding site; other site 469008006912 hinge residues; other site 469008006913 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 469008006914 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 469008006915 substrate binding pocket [chemical binding]; other site 469008006916 membrane-bound complex binding site; other site 469008006917 hinge residues; other site 469008006918 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 469008006919 Flavoprotein; Region: Flavoprotein; pfam02441 469008006920 amidophosphoribosyltransferase; Provisional; Region: PRK09246 469008006921 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 469008006922 active site 469008006923 tetramer interface [polypeptide binding]; other site 469008006924 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008006925 active site 469008006926 colicin V production protein; Provisional; Region: PRK10845 469008006927 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 469008006928 cell division protein DedD; Provisional; Region: PRK11633 469008006929 Sporulation related domain; Region: SPOR; pfam05036 469008006930 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 469008006931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008006932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008006933 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 469008006934 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 469008006935 hypothetical protein; Provisional; Region: PRK10847 469008006936 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008006937 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 469008006938 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 469008006939 dimerization interface 3.5A [polypeptide binding]; other site 469008006940 active site 469008006941 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 469008006942 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008006943 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 469008006944 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 469008006945 ligand binding site [chemical binding]; other site 469008006946 NAD binding site [chemical binding]; other site 469008006947 catalytic site [active] 469008006948 homodimer interface [polypeptide binding]; other site 469008006949 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 469008006950 putative transporter; Provisional; Region: PRK12382 469008006951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006952 putative substrate translocation pore; other site 469008006953 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 469008006954 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 469008006955 dimer interface [polypeptide binding]; other site 469008006956 active site 469008006957 Uncharacterized conserved protein [Function unknown]; Region: COG4121 469008006958 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 469008006959 YfcL protein; Region: YfcL; pfam08891 469008006960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 469008006961 hypothetical protein; Provisional; Region: PRK10621 469008006962 Predicted permeases [General function prediction only]; Region: COG0730 469008006963 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 469008006964 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 469008006965 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 469008006966 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 469008006967 Tetramer interface [polypeptide binding]; other site 469008006968 active site 469008006969 FMN-binding site [chemical binding]; other site 469008006970 HemK family putative methylases; Region: hemK_fam; TIGR00536 469008006971 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 469008006972 S-adenosylmethionine binding site [chemical binding]; other site 469008006973 hypothetical protein; Provisional; Region: PRK04946 469008006974 Smr domain; Region: Smr; pfam01713 469008006975 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 469008006976 Fimbrial protein; Region: Fimbrial; cl01416 469008006977 Fimbrial protein; Region: Fimbrial; cl01416 469008006978 Fimbrial protein; Region: Fimbrial; cl01416 469008006979 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008006980 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008006981 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 469008006982 PapC N-terminal domain; Region: PapC_N; pfam13954 469008006983 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008006984 PapC C-terminal domain; Region: PapC_C; pfam13953 469008006985 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008006986 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 469008006987 catalytic core [active] 469008006988 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 469008006989 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 469008006990 substrate binding site [chemical binding]; other site 469008006991 oxyanion hole (OAH) forming residues; other site 469008006992 trimer interface [polypeptide binding]; other site 469008006993 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469008006994 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008006995 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 469008006996 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 469008006997 dimer interface [polypeptide binding]; other site 469008006998 active site 469008006999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 469008007000 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 469008007001 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007003 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007004 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007005 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 469008007006 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 469008007007 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 469008007008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007009 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 469008007010 dimerization interface [polypeptide binding]; other site 469008007011 substrate binding pocket [chemical binding]; other site 469008007012 permease DsdX; Provisional; Region: PRK09921 469008007013 gluconate transporter; Region: gntP; TIGR00791 469008007014 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 469008007015 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 469008007016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008007017 catalytic residue [active] 469008007018 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 469008007019 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007020 putative substrate translocation pore; other site 469008007021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007022 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 469008007023 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008007024 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008007025 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 469008007026 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 469008007027 active site 469008007028 phosphorylation site [posttranslational modification] 469008007029 intermolecular recognition site; other site 469008007030 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 469008007031 DNA binding residues [nucleotide binding] 469008007032 dimerization interface [polypeptide binding]; other site 469008007033 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 469008007034 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 469008007035 substrate binding pocket [chemical binding]; other site 469008007036 membrane-bound complex binding site; other site 469008007037 hinge residues; other site 469008007038 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 469008007039 substrate binding pocket [chemical binding]; other site 469008007040 membrane-bound complex binding site; other site 469008007041 hinge residues; other site 469008007042 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 469008007043 dimer interface [polypeptide binding]; other site 469008007044 phosphorylation site [posttranslational modification] 469008007045 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 469008007046 ATP binding site [chemical binding]; other site 469008007047 Mg2+ binding site [ion binding]; other site 469008007048 G-X-G motif; other site 469008007049 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 469008007050 active site 469008007051 phosphorylation site [posttranslational modification] 469008007052 intermolecular recognition site; other site 469008007053 dimerization interface [polypeptide binding]; other site 469008007054 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 469008007055 putative binding surface; other site 469008007056 active site 469008007057 putative CoA-transferase; Provisional; Region: PRK11430 469008007058 CoA-transferase family III; Region: CoA_transf_3; pfam02515 469008007059 putative transporter YfdV; Provisional; Region: PRK09903 469008007060 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 469008007061 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008007062 PYR/PP interface [polypeptide binding]; other site 469008007063 dimer interface [polypeptide binding]; other site 469008007064 TPP binding site [chemical binding]; other site 469008007065 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008007066 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 469008007067 TPP-binding site; other site 469008007068 dimer interface [polypeptide binding]; other site 469008007069 formyl-coenzyme A transferase; Provisional; Region: PRK05398 469008007070 CoA-transferase family III; Region: CoA_transf_3; pfam02515 469008007071 hypothetical protein; Provisional; Region: PRK10316 469008007072 YfdX protein; Region: YfdX; pfam10938 469008007073 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 469008007074 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008007075 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008007076 putative acyl-acceptor binding pocket; other site 469008007077 aminotransferase; Validated; Region: PRK08175 469008007078 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 469008007079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007080 homodimer interface [polypeptide binding]; other site 469008007081 catalytic residue [active] 469008007082 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469008007083 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469008007084 GAF domain; Region: GAF; pfam01590 469008007085 Histidine kinase; Region: His_kinase; pfam06580 469008007086 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 469008007087 ATP binding site [chemical binding]; other site 469008007088 Mg2+ binding site [ion binding]; other site 469008007089 G-X-G motif; other site 469008007090 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 469008007091 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 469008007092 active site 469008007093 phosphorylation site [posttranslational modification] 469008007094 intermolecular recognition site; other site 469008007095 dimerization interface [polypeptide binding]; other site 469008007096 LytTr DNA-binding domain; Region: LytTR; pfam04397 469008007097 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008007098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007099 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 469008007100 dimerization domain swap beta strand [polypeptide binding]; other site 469008007101 regulatory protein interface [polypeptide binding]; other site 469008007102 active site 469008007103 regulatory phosphorylation site [posttranslational modification]; other site 469008007104 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008007105 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469008007106 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008007107 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008007108 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 469008007109 active site 469008007110 phosphorylation site [posttranslational modification] 469008007111 exoaminopeptidase; Provisional; Region: PRK09961 469008007112 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 469008007113 oligomer interface [polypeptide binding]; other site 469008007114 active site 469008007115 metal binding site [ion binding]; metal-binding site 469008007116 aminopeptidase; Provisional; Region: PRK09795 469008007117 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469008007118 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 469008007119 active site 469008007120 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008007121 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 469008007122 active site 469008007123 P-loop; other site 469008007124 phosphorylation site [posttranslational modification] 469008007125 glucokinase, proteobacterial type; Region: glk; TIGR00749 469008007126 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007127 nucleotide binding site [chemical binding]; other site 469008007128 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008007129 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 469008007130 Cl- selectivity filter; other site 469008007131 Cl- binding residues [ion binding]; other site 469008007132 pore gating glutamate residue; other site 469008007133 dimer interface [polypeptide binding]; other site 469008007134 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 469008007135 manganese transport protein MntH; Reviewed; Region: PRK00701 469008007136 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 469008007137 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008007138 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008007139 Nucleoside recognition; Region: Gate; pfam07670 469008007140 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008007141 MASE1; Region: MASE1; pfam05231 469008007142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008007143 diguanylate cyclase; Region: GGDEF; smart00267 469008007144 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 469008007145 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 469008007146 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 469008007147 salt bridge; other site 469008007148 non-specific DNA binding site [nucleotide binding]; other site 469008007149 sequence-specific DNA binding site [nucleotide binding]; other site 469008007150 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 469008007151 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469008007152 active site 469008007153 HIGH motif; other site 469008007154 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469008007155 active site 469008007156 KMSKS motif; other site 469008007157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008007158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007159 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 469008007160 putative dimerization interface [polypeptide binding]; other site 469008007161 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 469008007162 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 469008007163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 469008007164 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 469008007165 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 469008007166 nucleotide binding pocket [chemical binding]; other site 469008007167 K-X-D-G motif; other site 469008007168 catalytic site [active] 469008007169 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469008007170 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 469008007171 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 469008007172 Dimer interface [polypeptide binding]; other site 469008007173 BRCT sequence motif; other site 469008007174 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 469008007175 cell division protein ZipA; Provisional; Region: PRK03427 469008007176 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 469008007177 FtsZ protein binding site [polypeptide binding]; other site 469008007178 putative sulfate transport protein CysZ; Validated; Region: PRK04949 469008007179 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469008007180 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 469008007181 dimer interface [polypeptide binding]; other site 469008007182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007183 catalytic residue [active] 469008007184 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 469008007185 dimerization domain swap beta strand [polypeptide binding]; other site 469008007186 regulatory protein interface [polypeptide binding]; other site 469008007187 active site 469008007188 regulatory phosphorylation site [posttranslational modification]; other site 469008007189 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 469008007190 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008007191 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008007192 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008007193 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 469008007194 HPr interaction site; other site 469008007195 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008007196 active site 469008007197 phosphorylation site [posttranslational modification] 469008007198 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 469008007199 dimer interface [polypeptide binding]; other site 469008007200 pyridoxamine kinase; Validated; Region: PRK05756 469008007201 pyridoxal binding site [chemical binding]; other site 469008007202 ATP binding site [chemical binding]; other site 469008007203 hypothetical protein; Provisional; Region: PRK10318 469008007204 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469008007205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 469008007206 cysteine synthase B; Region: cysM; TIGR01138 469008007207 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 469008007208 dimer interface [polypeptide binding]; other site 469008007209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007210 catalytic residue [active] 469008007211 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 469008007212 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 469008007213 Walker A/P-loop; other site 469008007214 ATP binding site [chemical binding]; other site 469008007215 Q-loop/lid; other site 469008007216 ABC transporter signature motif; other site 469008007217 Walker B; other site 469008007218 D-loop; other site 469008007219 H-loop/switch region; other site 469008007220 TOBE-like domain; Region: TOBE_3; pfam12857 469008007221 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 469008007222 putative PBP binding loops; other site 469008007223 ABC-ATPase subunit interface; other site 469008007224 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 469008007225 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 469008007226 dimer interface [polypeptide binding]; other site 469008007227 conserved gate region; other site 469008007228 putative PBP binding loops; other site 469008007229 ABC-ATPase subunit interface; other site 469008007230 thiosulfate transporter subunit; Provisional; Region: PRK10852 469008007231 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469008007232 short chain dehydrogenase; Provisional; Region: PRK08226 469008007233 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 469008007234 NAD binding site [chemical binding]; other site 469008007235 homotetramer interface [polypeptide binding]; other site 469008007236 homodimer interface [polypeptide binding]; other site 469008007237 active site 469008007238 transcriptional regulator MurR; Provisional; Region: PRK15482 469008007239 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008007240 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 469008007241 putative active site [active] 469008007242 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 469008007243 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 469008007244 putative active site [active] 469008007245 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 469008007246 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 469008007247 active site turn [active] 469008007248 phosphorylation site [posttranslational modification] 469008007249 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008007250 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 469008007251 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 469008007252 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 469008007253 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 469008007254 putative acetyltransferase; Provisional; Region: PRK03624 469008007255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008007256 Coenzyme A binding pocket [chemical binding]; other site 469008007257 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 469008007258 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 469008007259 active site 469008007260 metal binding site [ion binding]; metal-binding site 469008007261 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 469008007262 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 469008007263 transcriptional regulator EutR; Provisional; Region: PRK10130 469008007264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007266 carboxysome structural protein EutK; Provisional; Region: PRK15466 469008007267 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469008007268 Hexamer interface [polypeptide binding]; other site 469008007269 Hexagonal pore residue; other site 469008007270 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 469008007271 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 469008007272 putative hexamer interface [polypeptide binding]; other site 469008007273 putative hexagonal pore; other site 469008007274 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 469008007275 putative hexamer interface [polypeptide binding]; other site 469008007276 putative hexagonal pore; other site 469008007277 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 469008007278 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 469008007279 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 469008007280 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 469008007281 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 469008007282 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 469008007283 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 469008007284 active site 469008007285 metal binding site [ion binding]; metal-binding site 469008007286 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 469008007287 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007288 nucleotide binding site [chemical binding]; other site 469008007289 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 469008007290 putative catalytic cysteine [active] 469008007291 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 469008007292 Hexamer/Pentamer interface [polypeptide binding]; other site 469008007293 central pore; other site 469008007294 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469008007295 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 469008007296 Hexamer interface [polypeptide binding]; other site 469008007297 Putative hexagonal pore residue; other site 469008007298 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 469008007299 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 469008007300 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 469008007301 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 469008007302 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469008007303 G1 box; other site 469008007304 GTP/Mg2+ binding site [chemical binding]; other site 469008007305 G2 box; other site 469008007306 Switch I region; other site 469008007307 G3 box; other site 469008007308 Switch II region; other site 469008007309 G4 box; other site 469008007310 G5 box; other site 469008007311 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 469008007312 putative hexamer interface [polypeptide binding]; other site 469008007313 putative hexagonal pore; other site 469008007314 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 469008007315 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469008007316 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 469008007317 putative NAD(P) binding site [chemical binding]; other site 469008007318 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 469008007319 transaldolase-like protein; Provisional; Region: PTZ00411 469008007320 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 469008007321 active site 469008007322 dimer interface [polypeptide binding]; other site 469008007323 catalytic residue [active] 469008007324 transketolase; Reviewed; Region: PRK12753 469008007325 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 469008007326 TPP-binding site [chemical binding]; other site 469008007327 dimer interface [polypeptide binding]; other site 469008007328 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 469008007329 PYR/PP interface [polypeptide binding]; other site 469008007330 dimer interface [polypeptide binding]; other site 469008007331 TPP binding site [chemical binding]; other site 469008007332 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008007333 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 469008007334 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 469008007335 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 469008007336 dimer interface [polypeptide binding]; other site 469008007337 ADP-ribose binding site [chemical binding]; other site 469008007338 active site 469008007339 nudix motif; other site 469008007340 metal binding site [ion binding]; metal-binding site 469008007341 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 469008007342 4Fe-4S binding domain; Region: Fer4; pfam00037 469008007343 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008007344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008007345 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 469008007346 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 469008007347 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 469008007348 dimerization interface [polypeptide binding]; other site 469008007349 Histidine kinase; Region: HisKA_3; pfam07730 469008007350 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 469008007351 ATP binding site [chemical binding]; other site 469008007352 Mg2+ binding site [ion binding]; other site 469008007353 G-X-G motif; other site 469008007354 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 469008007355 Protein export membrane protein; Region: SecD_SecF; cl14618 469008007356 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 469008007357 ArsC family; Region: ArsC; pfam03960 469008007358 putative catalytic residues [active] 469008007359 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 469008007360 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 469008007361 metal binding site [ion binding]; metal-binding site 469008007362 dimer interface [polypeptide binding]; other site 469008007363 hypothetical protein; Provisional; Region: PRK13664 469008007364 putative hydrolase; Provisional; Region: PRK11460 469008007365 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 469008007366 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 469008007367 Helicase; Region: Helicase_RecD; pfam05127 469008007368 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 469008007369 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 469008007370 Predicted metalloprotease [General function prediction only]; Region: COG2321 469008007371 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 469008007372 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 469008007373 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 469008007374 ATP binding site [chemical binding]; other site 469008007375 active site 469008007376 substrate binding site [chemical binding]; other site 469008007377 lipoprotein; Provisional; Region: PRK11679 469008007378 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 469008007379 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 469008007380 dihydrodipicolinate synthase; Region: dapA; TIGR00674 469008007381 dimer interface [polypeptide binding]; other site 469008007382 active site 469008007383 catalytic residue [active] 469008007384 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 469008007385 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 469008007386 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 469008007387 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 469008007388 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 469008007389 catalytic triad [active] 469008007390 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008007391 4Fe-4S binding domain; Region: Fer4; pfam00037 469008007392 hydrogenase 4 subunit B; Validated; Region: PRK06521 469008007393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008007394 hydrogenase 4 subunit D; Validated; Region: PRK06525 469008007395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008007396 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 469008007397 hydrogenase 4 subunit F; Validated; Region: PRK06458 469008007398 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008007399 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 469008007400 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 469008007401 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 469008007402 hydrogenase 4 subunit H; Validated; Region: PRK08222 469008007403 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 469008007404 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 469008007405 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 469008007406 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 469008007407 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008007408 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 469008007409 Walker A motif; other site 469008007410 ATP binding site [chemical binding]; other site 469008007411 Walker B motif; other site 469008007412 arginine finger; other site 469008007413 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008007414 putative formate transporter; Provisional; Region: focB; PRK09713 469008007415 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 469008007416 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008007417 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 469008007418 Peptidase family M48; Region: Peptidase_M48; cl12018 469008007419 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 469008007420 ArsC family; Region: ArsC; pfam03960 469008007421 catalytic residues [active] 469008007422 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 469008007423 DNA replication initiation factor; Provisional; Region: PRK08084 469008007424 uracil transporter; Provisional; Region: PRK10720 469008007425 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008007426 active site 469008007427 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 469008007428 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 469008007429 dimerization interface [polypeptide binding]; other site 469008007430 putative ATP binding site [chemical binding]; other site 469008007431 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 469008007432 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 469008007433 active site 469008007434 substrate binding site [chemical binding]; other site 469008007435 cosubstrate binding site; other site 469008007436 catalytic site [active] 469008007437 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 469008007438 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 469008007439 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 469008007440 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 469008007441 domain interface [polypeptide binding]; other site 469008007442 active site 469008007443 catalytic site [active] 469008007444 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 469008007445 putative active site [active] 469008007446 catalytic site [active] 469008007447 exopolyphosphatase; Provisional; Region: PRK10854 469008007448 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469008007449 MASE1; Region: MASE1; pfam05231 469008007450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008007451 diguanylate cyclase; Region: GGDEF; smart00267 469008007452 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 469008007453 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 469008007454 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 469008007455 GMP synthase; Reviewed; Region: guaA; PRK00074 469008007456 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 469008007457 AMP/PPi binding site [chemical binding]; other site 469008007458 candidate oxyanion hole; other site 469008007459 catalytic triad [active] 469008007460 potential glutamine specificity residues [chemical binding]; other site 469008007461 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 469008007462 ATP Binding subdomain [chemical binding]; other site 469008007463 Ligand Binding sites [chemical binding]; other site 469008007464 Dimerization subdomain; other site 469008007465 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 469008007466 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 469008007467 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 469008007468 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 469008007469 active site 469008007470 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 469008007471 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 469008007472 generic binding surface II; other site 469008007473 generic binding surface I; other site 469008007474 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 469008007475 GTP-binding protein Der; Reviewed; Region: PRK00093 469008007476 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 469008007477 G1 box; other site 469008007478 GTP/Mg2+ binding site [chemical binding]; other site 469008007479 Switch I region; other site 469008007480 G2 box; other site 469008007481 Switch II region; other site 469008007482 G3 box; other site 469008007483 G4 box; other site 469008007484 G5 box; other site 469008007485 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 469008007486 G1 box; other site 469008007487 GTP/Mg2+ binding site [chemical binding]; other site 469008007488 Switch I region; other site 469008007489 G2 box; other site 469008007490 G3 box; other site 469008007491 Switch II region; other site 469008007492 G4 box; other site 469008007493 G5 box; other site 469008007494 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 469008007495 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 469008007496 Trp docking motif [polypeptide binding]; other site 469008007497 active site 469008007498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 469008007499 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 469008007500 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 469008007501 dimer interface [polypeptide binding]; other site 469008007502 motif 1; other site 469008007503 active site 469008007504 motif 2; other site 469008007505 motif 3; other site 469008007506 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 469008007507 anticodon binding site; other site 469008007508 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 469008007509 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469008007510 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469008007511 cytoskeletal protein RodZ; Provisional; Region: PRK10856 469008007512 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 469008007513 non-specific DNA binding site [nucleotide binding]; other site 469008007514 salt bridge; other site 469008007515 sequence-specific DNA binding site [nucleotide binding]; other site 469008007516 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 469008007517 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 469008007518 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 469008007519 FeS/SAM binding site; other site 469008007520 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 469008007521 active site 469008007522 multimer interface [polypeptide binding]; other site 469008007523 penicillin-binding protein 1C; Provisional; Region: PRK11240 469008007524 Transglycosylase; Region: Transgly; pfam00912 469008007525 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008007526 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 469008007527 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469008007528 MG2 domain; Region: A2M_N; pfam01835 469008007529 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469008007530 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 469008007531 surface patch; other site 469008007532 thioester region; other site 469008007533 specificity defining residues; other site 469008007534 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 469008007535 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 469008007536 active site residue [active] 469008007537 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 469008007538 active site residue [active] 469008007539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008007540 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008007541 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008007542 putative transposase OrfB; Reviewed; Region: PHA02517 469008007543 HTH-like domain; Region: HTH_21; pfam13276 469008007544 Integrase core domain; Region: rve; pfam00665 469008007545 Integrase core domain; Region: rve_2; pfam13333 469008007546 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 469008007547 aminopeptidase B; Provisional; Region: PRK05015 469008007548 Peptidase; Region: DUF3663; pfam12404 469008007549 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 469008007550 interface (dimer of trimers) [polypeptide binding]; other site 469008007551 Substrate-binding/catalytic site; other site 469008007552 Zn-binding sites [ion binding]; other site 469008007553 hypothetical protein; Provisional; Region: PRK10721 469008007554 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008007555 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 469008007556 catalytic loop [active] 469008007557 iron binding site [ion binding]; other site 469008007558 chaperone protein HscA; Provisional; Region: hscA; PRK05183 469008007559 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 469008007560 nucleotide binding site [chemical binding]; other site 469008007561 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008007562 SBD interface [polypeptide binding]; other site 469008007563 co-chaperone HscB; Provisional; Region: hscB; PRK05014 469008007564 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 469008007565 HSP70 interaction site [polypeptide binding]; other site 469008007566 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 469008007567 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 469008007568 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 469008007569 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 469008007570 trimerization site [polypeptide binding]; other site 469008007571 active site 469008007572 cysteine desulfurase; Provisional; Region: PRK14012 469008007573 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 469008007574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008007575 catalytic residue [active] 469008007576 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 469008007577 Rrf2 family protein; Region: rrf2_super; TIGR00738 469008007578 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 469008007579 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 469008007580 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 469008007581 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 469008007582 active site 469008007583 dimerization interface [polypeptide binding]; other site 469008007584 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 469008007585 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008007586 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 469008007587 PRD domain; Region: PRD; pfam00874 469008007588 PRD domain; Region: PRD; pfam00874 469008007589 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 469008007590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007591 putative substrate translocation pore; other site 469008007592 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 469008007593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007594 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 469008007595 putative dimerization interface [polypeptide binding]; other site 469008007596 putative substrate binding pocket [chemical binding]; other site 469008007597 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 469008007598 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 469008007599 iron-sulfur cluster [ion binding]; other site 469008007600 [2Fe-2S] cluster binding site [ion binding]; other site 469008007601 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 469008007602 beta subunit interface [polypeptide binding]; other site 469008007603 alpha subunit interface [polypeptide binding]; other site 469008007604 active site 469008007605 substrate binding site [chemical binding]; other site 469008007606 Fe binding site [ion binding]; other site 469008007607 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 469008007608 inter-subunit interface; other site 469008007609 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 469008007610 [2Fe-2S] cluster binding site [ion binding]; other site 469008007611 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 469008007612 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 469008007613 NAD binding site [chemical binding]; other site 469008007614 active site 469008007615 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 469008007616 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008007617 Predicted membrane protein [Function unknown]; Region: COG2259 469008007618 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 469008007619 active site 469008007620 catalytic residues [active] 469008007621 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008007622 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 469008007623 putative NAD(P) binding site [chemical binding]; other site 469008007624 catalytic Zn binding site [ion binding]; other site 469008007625 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008007626 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 469008007627 TM-ABC transporter signature motif; other site 469008007628 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008007629 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008007630 Walker A/P-loop; other site 469008007631 ATP binding site [chemical binding]; other site 469008007632 Q-loop/lid; other site 469008007633 ABC transporter signature motif; other site 469008007634 Walker B; other site 469008007635 D-loop; other site 469008007636 H-loop/switch region; other site 469008007637 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008007638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 469008007639 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 469008007640 ligand binding site [chemical binding]; other site 469008007641 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 469008007642 TPR motif; other site 469008007643 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469008007644 binding surface 469008007645 TPR repeat; Region: TPR_11; pfam13414 469008007646 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 469008007647 TPR motif; other site 469008007648 binding surface 469008007649 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 469008007650 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008007651 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007652 nucleotide binding site [chemical binding]; other site 469008007653 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 469008007654 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 469008007655 dimer interface [polypeptide binding]; other site 469008007656 active site 469008007657 glycine-pyridoxal phosphate binding site [chemical binding]; other site 469008007658 folate binding site [chemical binding]; other site 469008007659 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 469008007660 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 469008007661 heme-binding site [chemical binding]; other site 469008007662 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 469008007663 FAD binding pocket [chemical binding]; other site 469008007664 FAD binding motif [chemical binding]; other site 469008007665 phosphate binding motif [ion binding]; other site 469008007666 beta-alpha-beta structure motif; other site 469008007667 NAD binding pocket [chemical binding]; other site 469008007668 Heme binding pocket [chemical binding]; other site 469008007669 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 469008007670 Nitrogen regulatory protein P-II; Region: P-II; smart00938 469008007671 response regulator GlrR; Provisional; Region: PRK15115 469008007672 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 469008007673 active site 469008007674 phosphorylation site [posttranslational modification] 469008007675 intermolecular recognition site; other site 469008007676 dimerization interface [polypeptide binding]; other site 469008007677 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 469008007678 Walker A motif; other site 469008007679 ATP binding site [chemical binding]; other site 469008007680 Walker B motif; other site 469008007681 arginine finger; other site 469008007682 hypothetical protein; Provisional; Region: PRK10722 469008007683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469008007684 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 469008007685 dimer interface [polypeptide binding]; other site 469008007686 phosphorylation site [posttranslational modification] 469008007687 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 469008007688 ATP binding site [chemical binding]; other site 469008007689 Mg2+ binding site [ion binding]; other site 469008007690 G-X-G motif; other site 469008007691 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 469008007692 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 469008007693 dimerization interface [polypeptide binding]; other site 469008007694 ATP binding site [chemical binding]; other site 469008007695 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 469008007696 dimerization interface [polypeptide binding]; other site 469008007697 ATP binding site [chemical binding]; other site 469008007698 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 469008007699 putative active site [active] 469008007700 catalytic triad [active] 469008007701 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007702 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007703 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007704 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007705 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 469008007706 nucleoside/Zn binding site; other site 469008007707 dimer interface [polypeptide binding]; other site 469008007708 catalytic motif [active] 469008007709 hypothetical protein; Provisional; Region: PRK11590 469008007710 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 469008007711 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008007712 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 469008007713 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 469008007714 putative active site [active] 469008007715 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 469008007716 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 469008007717 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 469008007718 active site 469008007719 hydrophilic channel; other site 469008007720 dimerization interface [polypeptide binding]; other site 469008007721 catalytic residues [active] 469008007722 active site lid [active] 469008007723 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 469008007724 Recombination protein O N terminal; Region: RecO_N; pfam11967 469008007725 Recombination protein O C terminal; Region: RecO_C; pfam02565 469008007726 GTPase Era; Reviewed; Region: era; PRK00089 469008007727 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 469008007728 G1 box; other site 469008007729 GTP/Mg2+ binding site [chemical binding]; other site 469008007730 Switch I region; other site 469008007731 G2 box; other site 469008007732 Switch II region; other site 469008007733 G3 box; other site 469008007734 G4 box; other site 469008007735 G5 box; other site 469008007736 KH domain; Region: KH_2; pfam07650 469008007737 ribonuclease III; Reviewed; Region: rnc; PRK00102 469008007738 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 469008007739 dimerization interface [polypeptide binding]; other site 469008007740 active site 469008007741 metal binding site [ion binding]; metal-binding site 469008007742 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 469008007743 dsRNA binding site [nucleotide binding]; other site 469008007744 signal peptidase I; Provisional; Region: PRK10861 469008007745 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 469008007746 Catalytic site [active] 469008007747 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 469008007748 GTP-binding protein LepA; Provisional; Region: PRK05433 469008007749 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 469008007750 G1 box; other site 469008007751 putative GEF interaction site [polypeptide binding]; other site 469008007752 GTP/Mg2+ binding site [chemical binding]; other site 469008007753 Switch I region; other site 469008007754 G2 box; other site 469008007755 G3 box; other site 469008007756 Switch II region; other site 469008007757 G4 box; other site 469008007758 G5 box; other site 469008007759 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 469008007760 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 469008007761 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 469008007762 SoxR reducing system protein RseC; Provisional; Region: PRK10862 469008007763 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 469008007764 anti-sigma E factor; Provisional; Region: rseB; PRK09455 469008007765 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 469008007766 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 469008007767 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 469008007768 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 469008007769 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008007770 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 469008007771 DNA binding residues [nucleotide binding] 469008007772 L-aspartate oxidase; Provisional; Region: PRK09077 469008007773 L-aspartate oxidase; Provisional; Region: PRK06175 469008007774 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008007775 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469008007776 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469008007777 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 469008007778 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 469008007779 ATP binding site [chemical binding]; other site 469008007780 Mg++ binding site [ion binding]; other site 469008007781 motif III; other site 469008007782 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 469008007783 nucleotide binding region [chemical binding]; other site 469008007784 ATP-binding site [chemical binding]; other site 469008007785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008007786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007787 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 469008007788 dimerization interface [polypeptide binding]; other site 469008007789 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 469008007790 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 469008007791 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 469008007792 ligand binding site [chemical binding]; other site 469008007793 active site 469008007794 UGI interface [polypeptide binding]; other site 469008007795 catalytic site [active] 469008007796 putative methyltransferase; Provisional; Region: PRK10864 469008007797 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 469008007798 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008007799 thioredoxin 2; Provisional; Region: PRK10996 469008007800 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 469008007801 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 469008007802 catalytic residues [active] 469008007803 Uncharacterized conserved protein [Function unknown]; Region: COG3148 469008007804 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 469008007805 CoA binding domain; Region: CoA_binding_2; pfam13380 469008007806 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 469008007807 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 469008007808 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469008007809 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469008007810 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 469008007811 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 469008007812 domain interface [polypeptide binding]; other site 469008007813 putative active site [active] 469008007814 catalytic site [active] 469008007815 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 469008007816 domain interface [polypeptide binding]; other site 469008007817 putative active site [active] 469008007818 catalytic site [active] 469008007819 lipoprotein; Provisional; Region: PRK10759 469008007820 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 469008007821 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007822 putative substrate translocation pore; other site 469008007823 protein disaggregation chaperone; Provisional; Region: PRK10865 469008007824 Clp amino terminal domain; Region: Clp_N; pfam02861 469008007825 Clp amino terminal domain; Region: Clp_N; pfam02861 469008007826 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 469008007827 Walker A motif; other site 469008007828 ATP binding site [chemical binding]; other site 469008007829 Walker B motif; other site 469008007830 arginine finger; other site 469008007831 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 469008007832 Walker A motif; other site 469008007833 ATP binding site [chemical binding]; other site 469008007834 Walker B motif; other site 469008007835 arginine finger; other site 469008007836 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 469008007837 hypothetical protein; Provisional; Region: PRK10723 469008007838 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 469008007839 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 469008007840 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 469008007841 RNA binding surface [nucleotide binding]; other site 469008007842 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008007843 active site 469008007844 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 469008007845 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 469008007846 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 469008007847 30S subunit binding site; other site 469008007848 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 469008007849 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 469008007850 Prephenate dehydratase; Region: PDT; pfam00800 469008007851 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 469008007852 putative L-Phe binding site [chemical binding]; other site 469008007853 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 469008007854 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 469008007855 prephenate dehydrogenase; Validated; Region: PRK08507 469008007856 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 469008007857 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008007858 lipoprotein; Provisional; Region: PRK11443 469008007859 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 469008007860 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 469008007861 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 469008007862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008007863 metal binding site [ion binding]; metal-binding site 469008007864 active site 469008007865 I-site; other site 469008007866 putative outer membrane lipoprotein; Provisional; Region: PRK09967 469008007867 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008007868 ligand binding site [chemical binding]; other site 469008007869 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 469008007870 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 469008007871 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 469008007872 RimM N-terminal domain; Region: RimM; pfam01782 469008007873 PRC-barrel domain; Region: PRC; pfam05239 469008007874 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 469008007875 signal recognition particle protein; Provisional; Region: PRK10867 469008007876 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 469008007877 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 469008007878 P loop; other site 469008007879 GTP binding site [chemical binding]; other site 469008007880 Signal peptide binding domain; Region: SRP_SPB; pfam02978 469008007881 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 469008007882 hypothetical protein; Provisional; Region: PRK11573 469008007883 Domain of unknown function DUF21; Region: DUF21; pfam01595 469008007884 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 469008007885 Transporter associated domain; Region: CorC_HlyC; smart01091 469008007886 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 469008007887 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 469008007888 dimer interface [polypeptide binding]; other site 469008007889 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 469008007890 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 469008007891 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 469008007892 recombination and repair protein; Provisional; Region: PRK10869 469008007893 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469008007894 Walker A/P-loop; other site 469008007895 ATP binding site [chemical binding]; other site 469008007896 Q-loop/lid; other site 469008007897 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469008007898 Q-loop/lid; other site 469008007899 ABC transporter signature motif; other site 469008007900 Walker B; other site 469008007901 D-loop; other site 469008007902 H-loop/switch region; other site 469008007903 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 469008007904 hypothetical protein; Validated; Region: PRK01777 469008007905 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 469008007906 putative coenzyme Q binding site [chemical binding]; other site 469008007907 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 469008007908 SmpB-tmRNA interface; other site 469008007909 cryptic prophage, CP4-57-like 469008007910 integrase; Provisional; Region: PRK09692 469008007911 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 469008007912 active site 469008007913 Int/Topo IB signature motif; other site 469008007914 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008007915 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 469008007916 catalytic residues [active] 469008007917 catalytic nucleophile [active] 469008007918 Recombinase; Region: Recombinase; pfam07508 469008007919 ParB-like nuclease domain; Region: ParBc; pfam02195 469008007920 RepB plasmid partitioning protein; Region: RepB; pfam07506 469008007921 ParB-like nuclease domain; Region: ParB; smart00470 469008007922 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 469008007923 RepB plasmid partitioning protein; Region: RepB; pfam07506 469008007924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007925 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007926 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007927 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007928 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 469008007929 substrate binding pocket [chemical binding]; other site 469008007930 active site 469008007931 iron coordination sites [ion binding]; other site 469008007932 Predicted dehydrogenase [General function prediction only]; Region: COG0579 469008007933 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008007934 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 469008007935 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 469008007936 tetramerization interface [polypeptide binding]; other site 469008007937 NAD(P) binding site [chemical binding]; other site 469008007938 catalytic residues [active] 469008007939 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 469008007940 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 469008007941 inhibitor-cofactor binding pocket; inhibition site 469008007942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007943 catalytic residue [active] 469008007944 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 469008007945 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 469008007946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008007947 DNA-binding site [nucleotide binding]; DNA binding site 469008007948 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008007949 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 469008007950 bacterial OsmY and nodulation domain; Region: BON; smart00749 469008007951 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008007952 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 469008007953 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 469008007954 dimerization interface [polypeptide binding]; other site 469008007955 putative DNA binding site [nucleotide binding]; other site 469008007956 Transcriptional regulators [Transcription]; Region: MarR; COG1846 469008007957 putative Zn2+ binding site [ion binding]; other site 469008007958 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 469008007959 active site residue [active] 469008007960 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 469008007961 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 469008007962 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 469008007963 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 469008007964 hypothetical protein; Provisional; Region: PRK10556 469008007965 hypothetical protein; Provisional; Region: PRK10132 469008007966 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 469008007967 catalytic residues [active] 469008007968 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 469008007969 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 469008007970 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 469008007971 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469008007972 active site 469008007973 dimer interface [polypeptide binding]; other site 469008007974 catalytic residues [active] 469008007975 effector binding site; other site 469008007976 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 469008007977 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 469008007978 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469008007979 dimer interface [polypeptide binding]; other site 469008007980 putative radical transfer pathway; other site 469008007981 diiron center [ion binding]; other site 469008007982 tyrosyl radical; other site 469008007983 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 469008007984 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 469008007985 Walker A/P-loop; other site 469008007986 ATP binding site [chemical binding]; other site 469008007987 Q-loop/lid; other site 469008007988 ABC transporter signature motif; other site 469008007989 Walker B; other site 469008007990 D-loop; other site 469008007991 H-loop/switch region; other site 469008007992 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 469008007993 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 469008007994 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 469008007995 dimer interface [polypeptide binding]; other site 469008007996 conserved gate region; other site 469008007997 putative PBP binding loops; other site 469008007998 ABC-ATPase subunit interface; other site 469008007999 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 469008008000 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 469008008001 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 469008008002 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008003 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 469008008004 putative L-valine exporter; Provisional; Region: PRK10408 469008008005 transcriptional repressor MprA; Provisional; Region: PRK10870 469008008006 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008008007 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 469008008008 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008008009 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008008010 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 469008008011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008012 putative substrate translocation pore; other site 469008008013 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008014 S-ribosylhomocysteinase; Provisional; Region: PRK02260 469008008015 glutamate--cysteine ligase; Provisional; Region: PRK02107 469008008016 Predicted membrane protein [Function unknown]; Region: COG1238 469008008017 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 469008008018 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 469008008019 motif II; other site 469008008020 carbon storage regulator; Provisional; Region: PRK01712 469008008021 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 469008008022 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 469008008023 motif 1; other site 469008008024 active site 469008008025 motif 2; other site 469008008026 motif 3; other site 469008008027 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469008008028 DHHA1 domain; Region: DHHA1; pfam02272 469008008029 recombination regulator RecX; Reviewed; Region: recX; PRK00117 469008008030 recombinase A; Provisional; Region: recA; PRK09354 469008008031 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 469008008032 hexamer interface [polypeptide binding]; other site 469008008033 Walker A motif; other site 469008008034 ATP binding site [chemical binding]; other site 469008008035 Walker B motif; other site 469008008036 hypothetical protein; Validated; Region: PRK03661 469008008037 Transglycosylase SLT domain; Region: SLT_2; pfam13406 469008008038 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 469008008039 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008008040 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 469008008041 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 469008008042 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 469008008043 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 469008008044 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 469008008045 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 469008008046 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 469008008047 putative NAD(P) binding site [chemical binding]; other site 469008008048 active site 469008008049 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 469008008050 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 469008008051 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008008052 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008053 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 469008008054 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 469008008055 putative active site [active] 469008008056 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 469008008057 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 469008008058 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008059 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 469008008060 Walker A motif; other site 469008008061 ATP binding site [chemical binding]; other site 469008008062 Walker B motif; other site 469008008063 arginine finger; other site 469008008064 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 469008008065 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469008008066 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469008008067 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 469008008068 iron binding site [ion binding]; other site 469008008069 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 469008008070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008071 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 469008008072 Acylphosphatase; Region: Acylphosphatase; pfam00708 469008008073 HypF finger; Region: zf-HYPF; pfam07503 469008008074 HypF finger; Region: zf-HYPF; pfam07503 469008008075 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 469008008076 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 469008008077 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 469008008078 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008008079 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008080 DNA binding site [nucleotide binding] 469008008081 domain linker motif; other site 469008008082 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 469008008083 dimerization interface (closed form) [polypeptide binding]; other site 469008008084 ligand binding site [chemical binding]; other site 469008008085 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 469008008086 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 469008008087 active site turn [active] 469008008088 phosphorylation site [posttranslational modification] 469008008089 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008008090 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 469008008091 beta-galactosidase; Region: BGL; TIGR03356 469008008092 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 469008008093 nickel binding site [ion binding]; other site 469008008094 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 469008008095 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 469008008096 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 469008008097 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 469008008098 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 469008008099 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 469008008100 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 469008008101 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 469008008102 NADH dehydrogenase; Region: NADHdh; cl00469 469008008103 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 469008008104 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008008105 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008008106 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 469008008107 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 469008008108 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 469008008109 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 469008008110 hydrogenase assembly chaperone; Provisional; Region: PRK10409 469008008111 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 469008008112 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 469008008113 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 469008008114 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 469008008115 dimerization interface [polypeptide binding]; other site 469008008116 ATP binding site [chemical binding]; other site 469008008117 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 469008008118 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008119 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008120 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 469008008121 Walker A motif; other site 469008008122 ATP binding site [chemical binding]; other site 469008008123 Walker B motif; other site 469008008124 arginine finger; other site 469008008125 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 469008008126 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 469008008127 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 469008008128 MutS domain I; Region: MutS_I; pfam01624 469008008129 MutS domain II; Region: MutS_II; pfam05188 469008008130 MutS domain III; Region: MutS_III; pfam05192 469008008131 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 469008008132 Walker A/P-loop; other site 469008008133 ATP binding site [chemical binding]; other site 469008008134 Q-loop/lid; other site 469008008135 ABC transporter signature motif; other site 469008008136 Walker B; other site 469008008137 D-loop; other site 469008008138 H-loop/switch region; other site 469008008139 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 469008008140 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008008141 active site 469008008142 metal binding site [ion binding]; metal-binding site 469008008143 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008008144 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008008145 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008146 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 469008008147 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008008148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 469008008149 putative aldolase; Validated; Region: PRK08130 469008008150 active site 469008008151 intersubunit interface [polypeptide binding]; other site 469008008152 Zn2+ binding site [ion binding]; other site 469008008153 hypothetical protein; Provisional; Region: PRK09989 469008008154 putative transporter; Provisional; Region: PRK09821 469008008155 GntP family permease; Region: GntP_permease; pfam02447 469008008156 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 469008008157 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469008008158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008008159 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469008008160 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 469008008161 DNA binding residues [nucleotide binding] 469008008162 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 469008008163 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008008164 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008008165 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 469008008166 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 469008008167 S-adenosylmethionine binding site [chemical binding]; other site 469008008168 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 469008008169 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 469008008170 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 469008008171 Permutation of conserved domain; other site 469008008172 active site 469008008173 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 469008008174 homotrimer interaction site [polypeptide binding]; other site 469008008175 zinc binding site [ion binding]; other site 469008008176 CDP-binding sites; other site 469008008177 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469008008178 substrate binding site; other site 469008008179 dimer interface; other site 469008008180 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 469008008181 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 469008008182 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 469008008183 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 469008008184 ligand-binding site [chemical binding]; other site 469008008185 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 469008008186 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 469008008187 CysD dimerization site [polypeptide binding]; other site 469008008188 G1 box; other site 469008008189 putative GEF interaction site [polypeptide binding]; other site 469008008190 GTP/Mg2+ binding site [chemical binding]; other site 469008008191 Switch I region; other site 469008008192 G2 box; other site 469008008193 G3 box; other site 469008008194 Switch II region; other site 469008008195 G4 box; other site 469008008196 G5 box; other site 469008008197 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 469008008198 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 469008008199 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 469008008200 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 469008008201 Active Sites [active] 469008008202 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 469008008203 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 469008008204 metal binding site [ion binding]; metal-binding site 469008008205 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008008206 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008008207 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 469008008208 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 469008008209 Active Sites [active] 469008008210 sulfite reductase subunit beta; Provisional; Region: PRK13504 469008008211 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008008212 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008008213 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 469008008214 Flavodoxin; Region: Flavodoxin_1; pfam00258 469008008215 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 469008008216 FAD binding pocket [chemical binding]; other site 469008008217 FAD binding motif [chemical binding]; other site 469008008218 catalytic residues [active] 469008008219 NAD binding pocket [chemical binding]; other site 469008008220 phosphate binding motif [ion binding]; other site 469008008221 beta-alpha-beta structure motif; other site 469008008222 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 469008008223 homohexamer interface [polypeptide binding]; other site 469008008224 putative substrate stabilizing pore; other site 469008008225 pterin binding site; other site 469008008226 putative oxidoreductase FixC; Provisional; Region: PRK10157 469008008227 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469008008228 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 469008008229 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469008008230 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 469008008231 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008008232 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 469008008233 Ligand binding site [chemical binding]; other site 469008008234 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008008235 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 469008008236 benzoate transport; Region: 2A0115; TIGR00895 469008008237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008238 putative substrate translocation pore; other site 469008008239 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469008008240 FAD binding domain; Region: FAD_binding_4; pfam01565 469008008241 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 469008008242 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 469008008243 NADP binding site [chemical binding]; other site 469008008244 homodimer interface [polypeptide binding]; other site 469008008245 active site 469008008246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008008247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008248 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 469008008249 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008008250 nucleotide binding site [chemical binding]; other site 469008008251 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 469008008252 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 469008008253 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 469008008254 Repair protein; Region: Repair_PSII; pfam04536 469008008255 enolase; Provisional; Region: eno; PRK00077 469008008256 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 469008008257 dimer interface [polypeptide binding]; other site 469008008258 metal binding site [ion binding]; metal-binding site 469008008259 substrate binding pocket [chemical binding]; other site 469008008260 CTP synthetase; Validated; Region: pyrG; PRK05380 469008008261 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 469008008262 Catalytic site [active] 469008008263 active site 469008008264 UTP binding site [chemical binding]; other site 469008008265 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 469008008266 active site 469008008267 putative oxyanion hole; other site 469008008268 catalytic triad [active] 469008008269 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 469008008270 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 469008008271 homodimer interface [polypeptide binding]; other site 469008008272 metal binding site [ion binding]; metal-binding site 469008008273 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 469008008274 homodimer interface [polypeptide binding]; other site 469008008275 active site 469008008276 putative chemical substrate binding site [chemical binding]; other site 469008008277 metal binding site [ion binding]; metal-binding site 469008008278 toxin MazF; Provisional; Region: PRK09907 469008008279 antitoxin MazE; Provisional; Region: PRK09798 469008008280 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 469008008281 HD domain; Region: HD_4; pfam13328 469008008282 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469008008283 synthetase active site [active] 469008008284 NTP binding site [chemical binding]; other site 469008008285 metal binding site [ion binding]; metal-binding site 469008008286 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 469008008287 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469008008288 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 469008008289 TRAM domain; Region: TRAM; pfam01938 469008008290 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 469008008291 S-adenosylmethionine binding site [chemical binding]; other site 469008008292 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 469008008293 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 469008008294 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 469008008295 dimerization interface [polypeptide binding]; other site 469008008296 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 469008008297 dimer interface [polypeptide binding]; other site 469008008298 phosphorylation site [posttranslational modification] 469008008299 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 469008008300 ATP binding site [chemical binding]; other site 469008008301 Mg2+ binding site [ion binding]; other site 469008008302 G-X-G motif; other site 469008008303 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 469008008304 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 469008008305 active site 469008008306 phosphorylation site [posttranslational modification] 469008008307 intermolecular recognition site; other site 469008008308 dimerization interface [polypeptide binding]; other site 469008008309 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 469008008310 putative binding surface; other site 469008008311 active site 469008008312 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 469008008313 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 469008008314 active site 469008008315 tetramer interface [polypeptide binding]; other site 469008008316 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 469008008317 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 469008008318 active site 469008008319 tetramer interface [polypeptide binding]; other site 469008008320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008321 D-galactonate transporter; Region: 2A0114; TIGR00893 469008008322 putative substrate translocation pore; other site 469008008323 flavodoxin; Provisional; Region: PRK08105 469008008324 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469008008325 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 469008008326 probable active site [active] 469008008327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 469008008328 SecY interacting protein Syd; Provisional; Region: PRK04968 469008008329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 469008008330 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 469008008331 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 469008008332 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 469008008333 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 469008008334 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008008335 serine transporter; Region: stp; TIGR00814 469008008336 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 469008008337 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008008338 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008008339 flap endonuclease-like protein; Provisional; Region: PRK09482 469008008340 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469008008341 active site 469008008342 metal binding site 1 [ion binding]; metal-binding site 469008008343 putative 5' ssDNA interaction site; other site 469008008344 metal binding site 3; metal-binding site 469008008345 metal binding site 2 [ion binding]; metal-binding site 469008008346 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469008008347 putative DNA binding site [nucleotide binding]; other site 469008008348 putative metal binding site [ion binding]; other site 469008008349 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 469008008350 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 469008008351 dimer interface [polypeptide binding]; other site 469008008352 active site 469008008353 metal binding site [ion binding]; metal-binding site 469008008354 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008356 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008357 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008358 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008359 DNA binding site [nucleotide binding] 469008008360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008008361 domain linker motif; other site 469008008362 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 469008008363 dimerization interface [polypeptide binding]; other site 469008008364 ligand binding site [chemical binding]; other site 469008008365 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 469008008366 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 469008008367 N- and C-terminal domain interface [polypeptide binding]; other site 469008008368 active site 469008008369 MgATP binding site [chemical binding]; other site 469008008370 catalytic site [active] 469008008371 metal binding site [ion binding]; metal-binding site 469008008372 carbohydrate binding site [chemical binding]; other site 469008008373 putative homodimer interface [polypeptide binding]; other site 469008008374 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 469008008375 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 469008008376 putative ligand binding site [chemical binding]; other site 469008008377 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008008378 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 469008008379 TM-ABC transporter signature motif; other site 469008008380 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008008381 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008008382 Walker A/P-loop; other site 469008008383 ATP binding site [chemical binding]; other site 469008008384 Q-loop/lid; other site 469008008385 ABC transporter signature motif; other site 469008008386 Walker B; other site 469008008387 D-loop; other site 469008008388 H-loop/switch region; other site 469008008389 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008008390 L-fucose isomerase; Provisional; Region: fucI; PRK10991 469008008391 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 469008008392 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008008393 trimer interface [polypeptide binding]; other site 469008008394 substrate binding site [chemical binding]; other site 469008008395 Mn binding site [ion binding]; other site 469008008396 L-fuculokinase; Provisional; Region: PRK10331 469008008397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008008398 nucleotide binding site [chemical binding]; other site 469008008399 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 469008008400 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 469008008401 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008008402 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008403 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 469008008404 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 469008008405 hypothetical protein; Provisional; Region: PRK10873 469008008406 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 469008008407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008408 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 469008008409 dimerization interface [polypeptide binding]; other site 469008008410 substrate binding pocket [chemical binding]; other site 469008008411 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 469008008412 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 469008008413 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 469008008414 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008008415 catalytic residue [active] 469008008416 CsdA-binding activator; Provisional; Region: PRK15019 469008008417 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 469008008418 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 469008008419 putative ATP binding site [chemical binding]; other site 469008008420 putative substrate interface [chemical binding]; other site 469008008421 murein transglycosylase A; Provisional; Region: mltA; PRK11162 469008008422 MltA specific insert domain; Region: MltA; pfam03562 469008008423 3D domain; Region: 3D; pfam06725 469008008424 AMIN domain; Region: AMIN; pfam11741 469008008425 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 469008008426 active site 469008008427 metal binding site [ion binding]; metal-binding site 469008008428 N-acetylglutamate synthase; Validated; Region: PRK05279 469008008429 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 469008008430 putative feedback inhibition sensing region; other site 469008008431 putative nucleotide binding site [chemical binding]; other site 469008008432 putative substrate binding site [chemical binding]; other site 469008008433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008008434 Coenzyme A binding pocket [chemical binding]; other site 469008008435 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 469008008436 AAA domain; Region: AAA_30; pfam13604 469008008437 Family description; Region: UvrD_C_2; pfam13538 469008008438 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 469008008439 protease3; Provisional; Region: PRK15101 469008008440 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469008008441 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008008442 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008008443 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 469008008444 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 469008008445 hypothetical protein; Provisional; Region: PRK10332 469008008446 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 469008008447 hypothetical protein; Provisional; Region: PRK11521 469008008448 hypothetical protein; Provisional; Region: PRK10557 469008008449 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008008450 hypothetical protein; Provisional; Region: PRK10506 469008008451 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008008452 thymidylate synthase; Reviewed; Region: thyA; PRK01827 469008008453 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 469008008454 dimerization interface [polypeptide binding]; other site 469008008455 active site 469008008456 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 469008008457 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 469008008458 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008459 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008008460 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008008461 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008008462 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 469008008463 putative active site [active] 469008008464 Ap4A binding site [chemical binding]; other site 469008008465 nudix motif; other site 469008008466 putative metal binding site [ion binding]; other site 469008008467 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 469008008468 putative DNA-binding cleft [nucleotide binding]; other site 469008008469 putative DNA clevage site; other site 469008008470 molecular lever; other site 469008008471 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008008472 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 469008008473 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 469008008474 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008008475 active site 469008008476 catalytic tetrad [active] 469008008477 lysophospholipid transporter LplT; Provisional; Region: PRK11195 469008008478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008479 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 469008008480 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469008008481 putative acyl-acceptor binding pocket; other site 469008008482 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 469008008483 acyl-activating enzyme (AAE) consensus motif; other site 469008008484 putative AMP binding site [chemical binding]; other site 469008008485 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 469008008486 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008487 DNA binding site [nucleotide binding] 469008008488 domain linker motif; other site 469008008489 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 469008008490 dimerization interface (closed form) [polypeptide binding]; other site 469008008491 ligand binding site [chemical binding]; other site 469008008492 diaminopimelate decarboxylase; Provisional; Region: PRK11165 469008008493 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 469008008494 active site 469008008495 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008496 substrate binding site [chemical binding]; other site 469008008497 catalytic residues [active] 469008008498 dimer interface [polypeptide binding]; other site 469008008499 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 469008008500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008501 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 469008008502 putative dimerization interface [polypeptide binding]; other site 469008008503 putative racemase; Provisional; Region: PRK10200 469008008504 aspartate racemase; Region: asp_race; TIGR00035 469008008505 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 469008008506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008507 putative substrate translocation pore; other site 469008008508 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008510 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008511 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008512 putative transposase OrfB; Reviewed; Region: PHA02517 469008008513 HTH-like domain; Region: HTH_21; pfam13276 469008008514 Integrase core domain; Region: rve; pfam00665 469008008515 Integrase core domain; Region: rve_2; pfam13333 469008008516 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 469008008517 putative acyltransferase; Provisional; Region: PRK05790 469008008518 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 469008008519 dimer interface [polypeptide binding]; other site 469008008520 active site 469008008521 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008008522 serine transporter; Region: stp; TIGR00814 469008008523 Transposase; Region: HTH_Tnp_1; cl17663 469008008524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008525 putative transposase OrfB; Reviewed; Region: PHA02517 469008008526 HTH-like domain; Region: HTH_21; pfam13276 469008008527 Integrase core domain; Region: rve; pfam00665 469008008528 Integrase core domain; Region: rve_2; pfam13333 469008008529 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008008530 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008008531 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 469008008532 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008008533 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008008534 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 469008008535 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 469008008536 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 469008008537 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 469008008538 catalytic loop [active] 469008008539 iron binding site [ion binding]; other site 469008008540 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008008541 GAF domain; Region: GAF; cl17456 469008008542 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 469008008543 PAS domain; Region: PAS; smart00091 469008008544 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 469008008545 Walker A motif; other site 469008008546 ATP binding site [chemical binding]; other site 469008008547 Walker B motif; other site 469008008548 arginine finger; other site 469008008549 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008008550 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 469008008551 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008008552 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008008553 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 469008008554 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 469008008555 catalytic residue [active] 469008008556 peptidase; Reviewed; Region: PRK13004 469008008557 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 469008008558 putative metal binding site [ion binding]; other site 469008008559 putative dimer interface [polypeptide binding]; other site 469008008560 D-hydantoinase; Region: D-hydantoinase; TIGR02033 469008008561 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 469008008562 tetramer interface [polypeptide binding]; other site 469008008563 active site 469008008564 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 469008008565 carbamate kinase; Reviewed; Region: PRK12686 469008008566 putative substrate binding site [chemical binding]; other site 469008008567 homodimer interface [polypeptide binding]; other site 469008008568 nucleotide binding site [chemical binding]; other site 469008008569 nucleotide binding site [chemical binding]; other site 469008008570 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 469008008571 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 469008008572 XdhC Rossmann domain; Region: XdhC_C; pfam13478 469008008573 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 469008008574 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 469008008575 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 469008008576 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 469008008577 Ligand binding site; other site 469008008578 metal-binding site 469008008579 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 469008008580 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 469008008581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008008582 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008583 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 469008008584 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 469008008585 active site 469008008586 putative substrate binding pocket [chemical binding]; other site 469008008587 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 469008008588 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 469008008589 putative hypoxanthine oxidase; Provisional; Region: PRK09800 469008008590 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008008591 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008008592 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008008593 uracil-xanthine permease; Region: ncs2; TIGR00801 469008008594 guanine deaminase; Provisional; Region: PRK09228 469008008595 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 469008008596 active site 469008008597 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008008598 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 469008008599 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 469008008600 4Fe-4S binding domain; Region: Fer4; pfam00037 469008008601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008008602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008603 xanthine permease; Region: pbuX; TIGR03173 469008008604 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 469008008605 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 469008008606 active site 469008008607 metal binding site [ion binding]; metal-binding site 469008008608 nudix motif; other site 469008008609 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 469008008610 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 469008008611 dimer interface [polypeptide binding]; other site 469008008612 putative anticodon binding site; other site 469008008613 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 469008008614 motif 1; other site 469008008615 active site 469008008616 motif 2; other site 469008008617 motif 3; other site 469008008618 peptide chain release factor 2; Validated; Region: prfB; PRK00578 469008008619 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469008008620 RF-1 domain; Region: RF-1; pfam00472 469008008621 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 469008008622 DHH family; Region: DHH; pfam01368 469008008623 DHHA1 domain; Region: DHHA1; pfam02272 469008008624 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 469008008625 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 469008008626 dimerization domain [polypeptide binding]; other site 469008008627 dimer interface [polypeptide binding]; other site 469008008628 catalytic residues [active] 469008008629 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 469008008630 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 469008008631 active site 469008008632 Int/Topo IB signature motif; other site 469008008633 flavodoxin FldB; Provisional; Region: PRK12359 469008008634 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 469008008635 hypothetical protein; Provisional; Region: PRK10878 469008008636 putative global regulator; Reviewed; Region: PRK09559 469008008637 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 469008008638 hemolysin; Provisional; Region: PRK15087 469008008639 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 469008008640 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 469008008641 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 469008008642 beta-galactosidase; Region: BGL; TIGR03356 469008008643 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 469008008644 classical (c) SDRs; Region: SDR_c; cd05233 469008008645 NAD(P) binding site [chemical binding]; other site 469008008646 active site 469008008647 glycine dehydrogenase; Provisional; Region: PRK05367 469008008648 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 469008008649 tetramer interface [polypeptide binding]; other site 469008008650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008651 catalytic residue [active] 469008008652 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 469008008653 tetramer interface [polypeptide binding]; other site 469008008654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008655 catalytic residue [active] 469008008656 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 469008008657 lipoyl attachment site [posttranslational modification]; other site 469008008658 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 469008008659 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 469008008660 oxidoreductase; Provisional; Region: PRK08013 469008008661 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 469008008662 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 469008008663 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 469008008664 proline aminopeptidase P II; Provisional; Region: PRK10879 469008008665 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 469008008666 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 469008008667 active site 469008008668 hypothetical protein; Reviewed; Region: PRK01736 469008008669 Z-ring-associated protein; Provisional; Region: PRK10972 469008008670 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 469008008671 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 469008008672 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 469008008673 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 469008008674 ligand binding site [chemical binding]; other site 469008008675 NAD binding site [chemical binding]; other site 469008008676 tetramer interface [polypeptide binding]; other site 469008008677 catalytic site [active] 469008008678 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 469008008679 L-serine binding site [chemical binding]; other site 469008008680 ACT domain interface; other site 469008008681 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 469008008682 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008008683 active site 469008008684 dimer interface [polypeptide binding]; other site 469008008685 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 469008008686 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 469008008687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008688 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 469008008689 putative dimerization interface [polypeptide binding]; other site 469008008690 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 469008008691 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 469008008692 active site 469008008693 substrate binding site [chemical binding]; other site 469008008694 coenzyme B12 binding site [chemical binding]; other site 469008008695 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 469008008696 B12 binding site [chemical binding]; other site 469008008697 cobalt ligand [ion binding]; other site 469008008698 membrane ATPase/protein kinase; Provisional; Region: PRK09435 469008008699 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 469008008700 Walker A; other site 469008008701 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 469008008702 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 469008008703 substrate binding site [chemical binding]; other site 469008008704 oxyanion hole (OAH) forming residues; other site 469008008705 trimer interface [polypeptide binding]; other site 469008008706 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 469008008707 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 469008008708 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469008008709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008008711 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 469008008712 dimerization interface [polypeptide binding]; other site 469008008713 Uncharacterized conserved protein [Function unknown]; Region: COG2968 469008008714 oxidative stress defense protein; Provisional; Region: PRK11087 469008008715 arginine exporter protein; Provisional; Region: PRK09304 469008008716 mechanosensitive channel MscS; Provisional; Region: PRK10334 469008008717 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008008718 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008008719 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 469008008720 active site 469008008721 intersubunit interface [polypeptide binding]; other site 469008008722 zinc binding site [ion binding]; other site 469008008723 Na+ binding site [ion binding]; other site 469008008724 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 469008008725 Phosphoglycerate kinase; Region: PGK; pfam00162 469008008726 substrate binding site [chemical binding]; other site 469008008727 hinge regions; other site 469008008728 ADP binding site [chemical binding]; other site 469008008729 catalytic site [active] 469008008730 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 469008008731 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008008732 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008008733 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 469008008734 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 469008008735 active site 469008008736 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 469008008737 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 469008008738 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 469008008739 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469008008740 putative active site [active] 469008008741 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 469008008742 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008008743 putative NAD(P) binding site [chemical binding]; other site 469008008744 catalytic Zn binding site [ion binding]; other site 469008008745 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 469008008746 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 469008008747 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 469008008748 active site 469008008749 P-loop; other site 469008008750 phosphorylation site [posttranslational modification] 469008008751 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 469008008752 active site 469008008753 phosphorylation site [posttranslational modification] 469008008754 transketolase; Reviewed; Region: PRK12753 469008008755 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 469008008756 TPP-binding site [chemical binding]; other site 469008008757 dimer interface [polypeptide binding]; other site 469008008758 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 469008008759 PYR/PP interface [polypeptide binding]; other site 469008008760 dimer interface [polypeptide binding]; other site 469008008761 TPP binding site [chemical binding]; other site 469008008762 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008008763 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 469008008764 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 469008008765 agmatinase; Region: agmatinase; TIGR01230 469008008766 oligomer interface [polypeptide binding]; other site 469008008767 putative active site [active] 469008008768 Mn binding site [ion binding]; other site 469008008769 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 469008008770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 469008008771 dimer interface [polypeptide binding]; other site 469008008772 active site 469008008773 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008774 catalytic residues [active] 469008008775 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 469008008776 Virulence promoting factor; Region: YqgB; pfam11036 469008008777 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 469008008778 S-adenosylmethionine synthetase; Validated; Region: PRK05250 469008008779 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 469008008780 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 469008008781 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 469008008782 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 469008008783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008784 putative substrate translocation pore; other site 469008008785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008786 hypothetical protein; Provisional; Region: PRK04860 469008008787 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 469008008788 DNA-specific endonuclease I; Provisional; Region: PRK15137 469008008789 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 469008008790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 469008008791 RNA methyltransferase, RsmE family; Region: TIGR00046 469008008792 glutathione synthetase; Provisional; Region: PRK05246 469008008793 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 469008008794 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 469008008795 hypothetical protein; Validated; Region: PRK00228 469008008796 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 469008008797 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 469008008798 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 469008008799 Walker A motif; other site 469008008800 ATP binding site [chemical binding]; other site 469008008801 Walker B motif; other site 469008008802 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 469008008803 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008804 catalytic residue [active] 469008008805 YGGT family; Region: YGGT; pfam02325 469008008806 YGGT family; Region: YGGT; pfam02325 469008008807 hypothetical protein; Validated; Region: PRK05090 469008008808 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 469008008809 active site 469008008810 dimerization interface [polypeptide binding]; other site 469008008811 HemN family oxidoreductase; Provisional; Region: PRK05660 469008008812 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 469008008813 FeS/SAM binding site; other site 469008008814 HemN C-terminal domain; Region: HemN_C; pfam06969 469008008815 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 469008008816 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 469008008817 homodimer interface [polypeptide binding]; other site 469008008818 active site 469008008819 hypothetical protein; Provisional; Region: PRK10626 469008008820 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 469008008821 hypothetical protein; Provisional; Region: PRK11702 469008008822 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 469008008823 adenine DNA glycosylase; Provisional; Region: PRK10880 469008008824 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008008825 minor groove reading motif; other site 469008008826 helix-hairpin-helix signature motif; other site 469008008827 substrate binding pocket [chemical binding]; other site 469008008828 active site 469008008829 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 469008008830 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 469008008831 DNA binding and oxoG recognition site [nucleotide binding] 469008008832 oxidative damage protection protein; Provisional; Region: PRK05408 469008008833 murein transglycosylase C; Provisional; Region: mltC; PRK11671 469008008834 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 469008008835 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 469008008836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008008837 catalytic residue [active] 469008008838 nucleoside transporter; Region: 2A0110; TIGR00889 469008008839 ornithine decarboxylase; Provisional; Region: PRK13578 469008008840 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008008841 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 469008008842 homodimer interface [polypeptide binding]; other site 469008008843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008844 catalytic residue [active] 469008008845 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008008846 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 469008008847 cryptic prophage, CPP-44-like 469008008848 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 469008008849 Methyltransferase domain; Region: Methyltransf_27; pfam13708 469008008850 KpsF/GutQ family protein; Region: kpsF; TIGR00393 469008008851 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 469008008852 putative active site [active] 469008008853 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 469008008854 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 469008008855 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 469008008856 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008008857 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469008008858 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469008008859 Ligand binding site; other site 469008008860 oligomer interface; other site 469008008861 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 469008008862 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 469008008863 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 469008008864 classical (c) SDRs; Region: SDR_c; cd05233 469008008865 NAD(P) binding site [chemical binding]; other site 469008008866 active site 469008008867 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008869 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008870 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008871 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469008008872 substrate binding site; other site 469008008873 dimer interface; other site 469008008874 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 469008008875 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469008008876 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 469008008877 Walker A/P-loop; other site 469008008878 ATP binding site [chemical binding]; other site 469008008879 Q-loop/lid; other site 469008008880 ABC transporter signature motif; other site 469008008881 Walker B; other site 469008008882 D-loop; other site 469008008883 H-loop/switch region; other site 469008008884 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 469008008885 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008008886 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 469008008887 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 469008008888 type II secretion system protein J; Region: gspJ; TIGR01711 469008008889 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 469008008890 type II secretion system protein I; Region: gspI; TIGR01707 469008008891 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 469008008892 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 469008008893 Type II transport protein GspH; Region: GspH; pfam12019 469008008894 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008008895 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 469008008896 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 469008008897 type II secretion system protein F; Region: GspF; TIGR02120 469008008898 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008008899 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008008900 type II secretion system protein E; Region: type_II_gspE; TIGR02533 469008008901 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 469008008902 Walker A motif; other site 469008008903 ATP binding site [chemical binding]; other site 469008008904 Walker B motif; other site 469008008905 type II secretion system protein D; Region: type_II_gspD; TIGR02517 469008008906 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008008907 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008008908 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008008909 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008008910 putative type II secretion protein GspC; Provisional; Region: PRK09681 469008008911 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 469008008912 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 469008008913 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 469008008914 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 469008008915 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469008008916 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 469008008917 Peptidase M60-like family; Region: M60-like; pfam13402 469008008918 glycolate transporter; Provisional; Region: PRK09695 469008008919 L-lactate permease; Region: Lactate_perm; cl00701 469008008920 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 469008008921 active site 469008008922 hypothetical protein; Provisional; Region: PRK09732 469008008923 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 469008008924 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 469008008925 Cysteine-rich domain; Region: CCG; pfam02754 469008008926 Cysteine-rich domain; Region: CCG; pfam02754 469008008927 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 469008008928 FAD binding domain; Region: FAD_binding_4; pfam01565 469008008929 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 469008008930 FAD binding domain; Region: FAD_binding_4; pfam01565 469008008931 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 469008008932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008008933 DNA-binding site [nucleotide binding]; DNA binding site 469008008934 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008008935 acyl-CoA synthetase; Validated; Region: PRK09192 469008008936 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 469008008937 acyl-activating enzyme (AAE) consensus motif; other site 469008008938 active site 469008008939 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008008940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008008941 NAD(P) binding site [chemical binding]; other site 469008008942 active site 469008008943 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 469008008944 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008008945 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 469008008946 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008008947 catalytic residue [active] 469008008948 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 469008008949 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008008950 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008008951 Predicted permeases [General function prediction only]; Region: COG0795 469008008952 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 469008008953 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469008008954 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 469008008955 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 469008008956 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 469008008957 active site 469008008958 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 469008008959 TMP-binding site; other site 469008008960 ATP-binding site [chemical binding]; other site 469008008961 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 469008008962 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 469008008963 TMP-binding site; other site 469008008964 ATP-binding site [chemical binding]; other site 469008008965 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008008966 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008008967 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 469008008968 CHAP domain; Region: CHAP; pfam05257 469008008969 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008008970 putative S-transferase; Provisional; Region: PRK11752 469008008971 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 469008008972 C-terminal domain interface [polypeptide binding]; other site 469008008973 GSH binding site (G-site) [chemical binding]; other site 469008008974 dimer interface [polypeptide binding]; other site 469008008975 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 469008008976 dimer interface [polypeptide binding]; other site 469008008977 N-terminal domain interface [polypeptide binding]; other site 469008008978 active site 469008008979 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 469008008980 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 469008008981 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 469008008982 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 469008008983 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 469008008984 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 469008008985 putative substrate-binding site; other site 469008008986 nickel binding site [ion binding]; other site 469008008987 hydrogenase 2 large subunit; Provisional; Region: PRK10467 469008008988 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 469008008989 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 469008008990 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 469008008991 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 469008008992 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008008993 hydrogenase 2 small subunit; Provisional; Region: PRK10468 469008008994 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008008995 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 469008008996 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 469008008997 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 469008008998 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008008999 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 469008009000 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008009001 active site 469008009002 catalytic tetrad [active] 469008009003 hypothetical protein; Provisional; Region: PRK05208 469008009004 oxidoreductase; Provisional; Region: PRK07985 469008009005 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 469008009006 NAD binding site [chemical binding]; other site 469008009007 metal binding site [ion binding]; metal-binding site 469008009008 active site 469008009009 biopolymer transport protein ExbD; Provisional; Region: PRK11267 469008009010 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469008009011 biopolymer transport protein ExbB; Provisional; Region: PRK10414 469008009012 cystathionine beta-lyase; Provisional; Region: PRK08114 469008009013 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 469008009014 homodimer interface [polypeptide binding]; other site 469008009015 substrate-cofactor binding pocket; other site 469008009016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009017 catalytic residue [active] 469008009018 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008009019 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 469008009020 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 469008009021 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008009022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008009023 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008009024 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 469008009025 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 469008009026 dimer interface [polypeptide binding]; other site 469008009027 active site 469008009028 metal binding site [ion binding]; metal-binding site 469008009029 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 469008009030 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008009031 active site 469008009032 catalytic tetrad [active] 469008009033 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 469008009034 putative outer membrane lipoprotein; Provisional; Region: PRK09973 469008009035 hypothetical protein; Provisional; Region: PRK01254 469008009036 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 469008009037 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 469008009038 FtsI repressor; Provisional; Region: PRK10883 469008009039 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 469008009040 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 469008009041 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 469008009042 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469008009043 putative acyl-acceptor binding pocket; other site 469008009044 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 469008009045 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 469008009046 CAP-like domain; other site 469008009047 active site 469008009048 primary dimer interface [polypeptide binding]; other site 469008009049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008009050 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 469008009051 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008009052 peptide binding site [polypeptide binding]; other site 469008009053 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 469008009054 toxin interface [polypeptide binding]; other site 469008009055 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 469008009056 Zn binding site [ion binding]; other site 469008009057 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 469008009058 non-specific DNA binding site [nucleotide binding]; other site 469008009059 salt bridge; other site 469008009060 sequence-specific DNA binding site [nucleotide binding]; other site 469008009061 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 469008009062 peptide binding site [polypeptide binding]; other site 469008009063 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 469008009064 TIGR00156 family protein; Region: TIGR00156 469008009065 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 469008009066 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 469008009067 active site 469008009068 phosphorylation site [posttranslational modification] 469008009069 intermolecular recognition site; other site 469008009070 dimerization interface [polypeptide binding]; other site 469008009071 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 469008009072 DNA binding site [nucleotide binding] 469008009073 sensor protein QseC; Provisional; Region: PRK10337 469008009074 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 469008009075 dimer interface [polypeptide binding]; other site 469008009076 phosphorylation site [posttranslational modification] 469008009077 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 469008009078 ATP binding site [chemical binding]; other site 469008009079 Mg2+ binding site [ion binding]; other site 469008009080 G-X-G motif; other site 469008009081 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 469008009082 Uncharacterized conserved protein [Function unknown]; Region: COG1359 469008009083 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 469008009084 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 469008009085 ATP binding site [chemical binding]; other site 469008009086 Mg2+ binding site [ion binding]; other site 469008009087 G-X-G motif; other site 469008009088 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 469008009089 anchoring element; other site 469008009090 dimer interface [polypeptide binding]; other site 469008009091 ATP binding site [chemical binding]; other site 469008009092 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 469008009093 active site 469008009094 metal binding site [ion binding]; metal-binding site 469008009095 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469008009096 esterase YqiA; Provisional; Region: PRK11071 469008009097 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469008009098 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 469008009099 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008009100 active site 469008009101 metal binding site [ion binding]; metal-binding site 469008009102 hexamer interface [polypeptide binding]; other site 469008009103 putative dehydrogenase; Provisional; Region: PRK11039 469008009104 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 469008009105 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 469008009106 dimer interface [polypeptide binding]; other site 469008009107 ADP-ribose binding site [chemical binding]; other site 469008009108 active site 469008009109 nudix motif; other site 469008009110 metal binding site [ion binding]; metal-binding site 469008009111 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 469008009112 hypothetical protein; Provisional; Region: PRK11653 469008009113 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008009114 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 469008009115 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008009116 putative active site [active] 469008009117 metal binding site [ion binding]; metal-binding site 469008009118 zinc transporter ZupT; Provisional; Region: PRK04201 469008009119 ZIP Zinc transporter; Region: Zip; pfam02535 469008009120 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 469008009121 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 469008009122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 469008009123 putative fimbrial protein; Provisional; Region: PRK09733 469008009124 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008009125 PapC N-terminal domain; Region: PapC_N; pfam13954 469008009126 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008009127 PapC C-terminal domain; Region: PapC_C; pfam13953 469008009128 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008009129 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008009130 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008009131 Fimbrial protein; Region: Fimbrial; pfam00419 469008009132 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 469008009133 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 469008009134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 469008009135 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 469008009136 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 469008009137 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 469008009138 putative ribose interaction site [chemical binding]; other site 469008009139 putative ADP binding site [chemical binding]; other site 469008009140 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 469008009141 active site 469008009142 nucleotide binding site [chemical binding]; other site 469008009143 HIGH motif; other site 469008009144 KMSKS motif; other site 469008009145 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 469008009146 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008009147 metal binding triad; other site 469008009148 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008009149 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008009150 metal binding triad; other site 469008009151 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008009152 Uncharacterized conserved protein [Function unknown]; Region: COG3025 469008009153 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 469008009154 putative active site [active] 469008009155 putative metal binding residues [ion binding]; other site 469008009156 signature motif; other site 469008009157 putative triphosphate binding site [ion binding]; other site 469008009158 CHAD domain; Region: CHAD; pfam05235 469008009159 SH3 domain-containing protein; Provisional; Region: PRK10884 469008009160 Bacterial SH3 domain homologues; Region: SH3b; smart00287 469008009161 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 469008009162 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469008009163 active site 469008009164 NTP binding site [chemical binding]; other site 469008009165 metal binding triad [ion binding]; metal-binding site 469008009166 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469008009167 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008009168 Zn2+ binding site [ion binding]; other site 469008009169 Mg2+ binding site [ion binding]; other site 469008009170 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 469008009171 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 469008009172 homooctamer interface [polypeptide binding]; other site 469008009173 active site 469008009174 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 469008009175 transcriptional activator TtdR; Provisional; Region: PRK09801 469008009176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009177 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 469008009178 putative effector binding pocket; other site 469008009179 putative dimerization interface [polypeptide binding]; other site 469008009180 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 469008009181 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 469008009182 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008009183 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 469008009184 transmembrane helices; other site 469008009185 UGMP family protein; Validated; Region: PRK09604 469008009186 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 469008009187 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 469008009188 DNA primase; Validated; Region: dnaG; PRK05667 469008009189 CHC2 zinc finger; Region: zf-CHC2; pfam01807 469008009190 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 469008009191 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 469008009192 active site 469008009193 metal binding site [ion binding]; metal-binding site 469008009194 interdomain interaction site; other site 469008009195 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 469008009196 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 469008009197 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 469008009198 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 469008009199 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469008009200 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 469008009201 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008009202 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469008009203 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 469008009204 DNA binding residues [nucleotide binding] 469008009205 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 469008009206 active site 469008009207 SUMO-1 interface [polypeptide binding]; other site 469008009208 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 469008009209 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 469008009210 FAD binding pocket [chemical binding]; other site 469008009211 FAD binding motif [chemical binding]; other site 469008009212 phosphate binding motif [ion binding]; other site 469008009213 NAD binding pocket [chemical binding]; other site 469008009214 Predicted transcriptional regulators [Transcription]; Region: COG1695 469008009215 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 469008009216 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 469008009217 PAS fold; Region: PAS_3; pfam08447 469008009218 putative active site [active] 469008009219 heme pocket [chemical binding]; other site 469008009220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 469008009221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008009222 dimer interface [polypeptide binding]; other site 469008009223 putative CheW interface [polypeptide binding]; other site 469008009224 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 469008009225 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 469008009226 inhibitor-cofactor binding pocket; inhibition site 469008009227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009228 catalytic residue [active] 469008009229 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 469008009230 dimer interface [polypeptide binding]; other site 469008009231 putative tRNA-binding site [nucleotide binding]; other site 469008009232 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 469008009233 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008009234 DNA binding site [nucleotide binding] 469008009235 domain linker motif; other site 469008009236 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 469008009237 putative dimerization interface [polypeptide binding]; other site 469008009238 putative ligand binding site [chemical binding]; other site 469008009239 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 469008009240 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008009241 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008009242 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008009243 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 469008009244 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 469008009245 inner membrane transporter YjeM; Provisional; Region: PRK15238 469008009246 alpha-glucosidase; Provisional; Region: PRK10137 469008009247 Protein of unknown function, DUF608; Region: DUF608; pfam04685 469008009248 Trehalase; Region: Trehalase; cl17346 469008009249 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469008009250 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 469008009251 active site 469008009252 FMN binding site [chemical binding]; other site 469008009253 2,4-decadienoyl-CoA binding site; other site 469008009254 catalytic residue [active] 469008009255 4Fe-4S cluster binding site [ion binding]; other site 469008009256 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 469008009257 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 469008009258 non-specific DNA binding site [nucleotide binding]; other site 469008009259 salt bridge; other site 469008009260 sequence-specific DNA binding site [nucleotide binding]; other site 469008009261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 469008009262 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 469008009263 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 469008009264 S-adenosylmethionine binding site [chemical binding]; other site 469008009265 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 469008009266 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 469008009267 putative active site [active] 469008009268 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008009269 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008009270 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 469008009271 serine/threonine transporter SstT; Provisional; Region: PRK13628 469008009272 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008009273 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 469008009274 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 469008009275 galactarate dehydratase; Region: galactar-dH20; TIGR03248 469008009276 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 469008009277 Glucuronate isomerase; Region: UxaC; pfam02614 469008009278 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 469008009279 D-galactonate transporter; Region: 2A0114; TIGR00893 469008009280 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009281 putative substrate translocation pore; other site 469008009282 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 469008009283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008009284 DNA-binding site [nucleotide binding]; DNA binding site 469008009285 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008009286 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008009287 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 469008009288 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 469008009289 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 469008009290 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 469008009291 Predicted membrane protein [Function unknown]; Region: COG5393 469008009292 YqjK-like protein; Region: YqjK; pfam13997 469008009293 Predicted membrane protein [Function unknown]; Region: COG2259 469008009294 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 469008009295 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 469008009296 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 469008009297 putative dimer interface [polypeptide binding]; other site 469008009298 N-terminal domain interface [polypeptide binding]; other site 469008009299 putative substrate binding pocket (H-site) [chemical binding]; other site 469008009300 Predicted membrane protein [Function unknown]; Region: COG3152 469008009301 Predicted membrane protein [Function unknown]; Region: COG3152 469008009302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009303 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008009304 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 469008009305 dimerization interface [polypeptide binding]; other site 469008009306 Pirin-related protein [General function prediction only]; Region: COG1741 469008009307 Pirin; Region: Pirin; pfam02678 469008009308 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 469008009309 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008009310 serine transporter; Region: stp; TIGR00814 469008009311 L-serine dehydratase TdcG; Provisional; Region: PRK15040 469008009312 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008009313 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008009314 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 469008009315 homotrimer interaction site [polypeptide binding]; other site 469008009316 putative active site [active] 469008009317 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 469008009318 Pyruvate formate lyase 1; Region: PFL1; cd01678 469008009319 coenzyme A binding site [chemical binding]; other site 469008009320 active site 469008009321 catalytic residues [active] 469008009322 glycine loop; other site 469008009323 propionate/acetate kinase; Provisional; Region: PRK12379 469008009324 Acetokinase family; Region: Acetate_kinase; cl17229 469008009325 threonine/serine transporter TdcC; Provisional; Region: PRK13629 469008009326 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008009327 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 469008009328 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 469008009329 tetramer interface [polypeptide binding]; other site 469008009330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009331 catalytic residue [active] 469008009332 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 469008009333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009334 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 469008009335 putative substrate binding pocket [chemical binding]; other site 469008009336 putative dimerization interface [polypeptide binding]; other site 469008009337 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 469008009338 hypothetical protein; Provisional; Region: PRK09716 469008009339 glycerate kinase I; Provisional; Region: PRK10342 469008009340 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 469008009341 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008009342 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 469008009343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009344 D-galactonate transporter; Region: 2A0114; TIGR00893 469008009345 putative substrate translocation pore; other site 469008009346 galactarate dehydratase; Region: galactar-dH20; TIGR03248 469008009347 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 469008009348 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 469008009349 putative regulator PrlF; Provisional; Region: PRK09974 469008009350 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 469008009351 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 469008009352 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 469008009353 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008009354 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008009355 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 469008009356 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 469008009357 active site 469008009358 phosphorylation site [posttranslational modification] 469008009359 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 469008009360 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 469008009361 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 469008009362 active pocket/dimerization site; other site 469008009363 active site 469008009364 phosphorylation site [posttranslational modification] 469008009365 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 469008009366 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 469008009367 active site 469008009368 dimer interface [polypeptide binding]; other site 469008009369 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 469008009370 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 469008009371 dimer interface [polypeptide binding]; other site 469008009372 active site 469008009373 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 469008009374 putative active site [active] 469008009375 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 469008009376 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008009377 active site 469008009378 intersubunit interface [polypeptide binding]; other site 469008009379 zinc binding site [ion binding]; other site 469008009380 Na+ binding site [ion binding]; other site 469008009381 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 469008009382 active site 469008009383 phosphorylation site [posttranslational modification] 469008009384 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 469008009385 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 469008009386 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008009387 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 469008009388 active site 469008009389 trimer interface [polypeptide binding]; other site 469008009390 allosteric site; other site 469008009391 active site lid [active] 469008009392 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008009393 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008009394 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008009395 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008009396 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008009397 PapC N-terminal domain; Region: PapC_N; pfam13954 469008009398 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008009399 PapC C-terminal domain; Region: PapC_C; pfam13953 469008009400 Fimbrial protein; Region: Fimbrial; pfam00419 469008009401 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 469008009402 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 469008009403 putative SAM binding site [chemical binding]; other site 469008009404 putative homodimer interface [polypeptide binding]; other site 469008009405 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 469008009406 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 469008009407 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 469008009408 putative ligand binding site [chemical binding]; other site 469008009409 TIGR00252 family protein; Region: TIGR00252 469008009410 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 469008009411 dimer interface [polypeptide binding]; other site 469008009412 active site 469008009413 outer membrane lipoprotein; Provisional; Region: PRK11023 469008009414 BON domain; Region: BON; pfam04972 469008009415 BON domain; Region: BON; pfam04972 469008009416 Predicted permease; Region: DUF318; pfam03773 469008009417 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 469008009418 NADH(P)-binding; Region: NAD_binding_10; pfam13460 469008009419 NAD binding site [chemical binding]; other site 469008009420 active site 469008009421 intracellular protease, PfpI family; Region: PfpI; TIGR01382 469008009422 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 469008009423 proposed catalytic triad [active] 469008009424 conserved cys residue [active] 469008009425 hypothetical protein; Provisional; Region: PRK03467 469008009426 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 469008009427 GIY-YIG motif/motif A; other site 469008009428 putative active site [active] 469008009429 putative metal binding site [ion binding]; other site 469008009430 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 469008009431 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008009432 Coenzyme A binding pocket [chemical binding]; other site 469008009433 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 469008009434 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008009435 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008009436 putative protease; Provisional; Region: PRK15447 469008009437 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008009438 hypothetical protein; Provisional; Region: PRK10508 469008009439 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 469008009440 tryptophan permease; Provisional; Region: PRK10483 469008009441 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008009442 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 469008009443 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 469008009444 ATP binding site [chemical binding]; other site 469008009445 Mg++ binding site [ion binding]; other site 469008009446 motif III; other site 469008009447 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 469008009448 nucleotide binding region [chemical binding]; other site 469008009449 ATP-binding site [chemical binding]; other site 469008009450 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 469008009451 putative RNA binding site [nucleotide binding]; other site 469008009452 lipoprotein NlpI; Provisional; Region: PRK11189 469008009453 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 469008009454 binding surface 469008009455 TPR motif; other site 469008009456 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 469008009457 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 469008009458 RNase E interface [polypeptide binding]; other site 469008009459 trimer interface [polypeptide binding]; other site 469008009460 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 469008009461 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 469008009462 RNase E interface [polypeptide binding]; other site 469008009463 trimer interface [polypeptide binding]; other site 469008009464 active site 469008009465 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 469008009466 putative nucleic acid binding region [nucleotide binding]; other site 469008009467 G-X-X-G motif; other site 469008009468 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 469008009469 RNA binding site [nucleotide binding]; other site 469008009470 domain interface; other site 469008009471 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 469008009472 16S/18S rRNA binding site [nucleotide binding]; other site 469008009473 S13e-L30e interaction site [polypeptide binding]; other site 469008009474 25S rRNA binding site [nucleotide binding]; other site 469008009475 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 469008009476 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 469008009477 RNA binding site [nucleotide binding]; other site 469008009478 active site 469008009479 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 469008009480 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 469008009481 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469008009482 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 469008009483 translation initiation factor IF-2; Region: IF-2; TIGR00487 469008009484 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469008009485 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 469008009486 G1 box; other site 469008009487 putative GEF interaction site [polypeptide binding]; other site 469008009488 GTP/Mg2+ binding site [chemical binding]; other site 469008009489 Switch I region; other site 469008009490 G2 box; other site 469008009491 G3 box; other site 469008009492 Switch II region; other site 469008009493 G4 box; other site 469008009494 G5 box; other site 469008009495 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 469008009496 Translation-initiation factor 2; Region: IF-2; pfam11987 469008009497 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 469008009498 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 469008009499 NusA N-terminal domain; Region: NusA_N; pfam08529 469008009500 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 469008009501 RNA binding site [nucleotide binding]; other site 469008009502 homodimer interface [polypeptide binding]; other site 469008009503 NusA-like KH domain; Region: KH_5; pfam13184 469008009504 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 469008009505 G-X-X-G motif; other site 469008009506 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 469008009507 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 469008009508 ribosome maturation protein RimP; Reviewed; Region: PRK00092 469008009509 Sm and related proteins; Region: Sm_like; cl00259 469008009510 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 469008009511 putative oligomer interface [polypeptide binding]; other site 469008009512 putative RNA binding site [nucleotide binding]; other site 469008009513 argininosuccinate synthase; Validated; Region: PRK05370 469008009514 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 469008009515 Sulfatase; Region: Sulfatase; pfam00884 469008009516 Preprotein translocase SecG subunit; Region: SecG; pfam03840 469008009517 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 469008009518 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 469008009519 active site 469008009520 substrate binding site [chemical binding]; other site 469008009521 metal binding site [ion binding]; metal-binding site 469008009522 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 469008009523 dihydropteroate synthase; Region: DHPS; TIGR01496 469008009524 substrate binding pocket [chemical binding]; other site 469008009525 dimer interface [polypeptide binding]; other site 469008009526 inhibitor binding site; inhibition site 469008009527 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 469008009528 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 469008009529 Walker A motif; other site 469008009530 ATP binding site [chemical binding]; other site 469008009531 Walker B motif; other site 469008009532 arginine finger; other site 469008009533 Peptidase family M41; Region: Peptidase_M41; pfam01434 469008009534 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 469008009535 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 469008009536 S-adenosylmethionine binding site [chemical binding]; other site 469008009537 RNA-binding protein YhbY; Provisional; Region: PRK10343 469008009538 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 469008009539 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 469008009540 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008009541 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 469008009542 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 469008009543 GTPase CgtA; Reviewed; Region: obgE; PRK12298 469008009544 GTP1/OBG; Region: GTP1_OBG; pfam01018 469008009545 Obg GTPase; Region: Obg; cd01898 469008009546 G1 box; other site 469008009547 GTP/Mg2+ binding site [chemical binding]; other site 469008009548 Switch I region; other site 469008009549 G2 box; other site 469008009550 G3 box; other site 469008009551 Switch II region; other site 469008009552 G4 box; other site 469008009553 G5 box; other site 469008009554 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469008009555 EamA-like transporter family; Region: EamA; pfam00892 469008009556 EamA-like transporter family; Region: EamA; pfam00892 469008009557 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 469008009558 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 469008009559 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 469008009560 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469008009561 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469008009562 substrate binding pocket [chemical binding]; other site 469008009563 chain length determination region; other site 469008009564 substrate-Mg2+ binding site; other site 469008009565 catalytic residues [active] 469008009566 aspartate-rich region 1; other site 469008009567 active site lid residues [active] 469008009568 aspartate-rich region 2; other site 469008009569 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 469008009570 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 469008009571 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 469008009572 hinge; other site 469008009573 active site 469008009574 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 469008009575 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 469008009576 anti sigma factor interaction site; other site 469008009577 regulatory phosphorylation site [posttranslational modification]; other site 469008009578 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 469008009579 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 469008009580 mce related protein; Region: MCE; pfam02470 469008009581 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 469008009582 conserved hypothetical integral membrane protein; Region: TIGR00056 469008009583 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 469008009584 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 469008009585 Walker A/P-loop; other site 469008009586 ATP binding site [chemical binding]; other site 469008009587 Q-loop/lid; other site 469008009588 ABC transporter signature motif; other site 469008009589 Walker B; other site 469008009590 D-loop; other site 469008009591 H-loop/switch region; other site 469008009592 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 469008009593 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008009594 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008009595 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 469008009596 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 469008009597 putative active site [active] 469008009598 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 469008009599 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 469008009600 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 469008009601 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 469008009602 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 469008009603 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 469008009604 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 469008009605 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 469008009606 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 469008009607 Walker A/P-loop; other site 469008009608 ATP binding site [chemical binding]; other site 469008009609 Q-loop/lid; other site 469008009610 ABC transporter signature motif; other site 469008009611 Walker B; other site 469008009612 D-loop; other site 469008009613 H-loop/switch region; other site 469008009614 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 469008009615 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 469008009616 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 469008009617 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 469008009618 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 469008009619 30S subunit binding site; other site 469008009620 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 469008009621 active site 469008009622 phosphorylation site [posttranslational modification] 469008009623 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 469008009624 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 469008009625 dimerization domain swap beta strand [polypeptide binding]; other site 469008009626 regulatory protein interface [polypeptide binding]; other site 469008009627 active site 469008009628 regulatory phosphorylation site [posttranslational modification]; other site 469008009629 hypothetical protein; Provisional; Region: PRK10345 469008009630 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 469008009631 Transglycosylase; Region: Transgly; cl17702 469008009632 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 469008009633 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 469008009634 conserved cys residue [active] 469008009635 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 469008009636 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 469008009637 putative active site [active] 469008009638 heme pocket [chemical binding]; other site 469008009639 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 469008009640 dimer interface [polypeptide binding]; other site 469008009641 phosphorylation site [posttranslational modification] 469008009642 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 469008009643 ATP binding site [chemical binding]; other site 469008009644 Mg2+ binding site [ion binding]; other site 469008009645 G-X-G motif; other site 469008009646 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 469008009647 active site 469008009648 phosphorylation site [posttranslational modification] 469008009649 intermolecular recognition site; other site 469008009650 dimerization interface [polypeptide binding]; other site 469008009651 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 469008009652 putative binding surface; other site 469008009653 active site 469008009654 radical SAM protein, TIGR01212 family; Region: TIGR01212 469008009655 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 469008009656 FeS/SAM binding site; other site 469008009657 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 469008009658 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 469008009659 active site 469008009660 dimer interface [polypeptide binding]; other site 469008009661 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 469008009662 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 469008009663 active site 469008009664 FMN binding site [chemical binding]; other site 469008009665 substrate binding site [chemical binding]; other site 469008009666 3Fe-4S cluster binding site [ion binding]; other site 469008009667 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 469008009668 domain interface; other site 469008009669 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 469008009670 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008009671 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008009672 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 469008009673 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 469008009674 N-acetylmannosamine kinase; Provisional; Region: PRK05082 469008009675 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008009676 nucleotide binding site [chemical binding]; other site 469008009677 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008009678 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 469008009679 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 469008009680 putative active site cavity [active] 469008009681 putative sialic acid transporter; Provisional; Region: PRK03893 469008009682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009683 putative substrate translocation pore; other site 469008009684 N-acetylneuraminate lyase; Region: nanA; TIGR00683 469008009685 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 469008009686 inhibitor site; inhibition site 469008009687 active site 469008009688 dimer interface [polypeptide binding]; other site 469008009689 catalytic residue [active] 469008009690 transcriptional regulator NanR; Provisional; Region: PRK03837 469008009691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008009692 DNA-binding site [nucleotide binding]; DNA binding site 469008009693 FCD domain; Region: FCD; pfam07729 469008009694 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 469008009695 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008009696 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 469008009697 stringent starvation protein A; Provisional; Region: sspA; PRK09481 469008009698 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 469008009699 C-terminal domain interface [polypeptide binding]; other site 469008009700 putative GSH binding site (G-site) [chemical binding]; other site 469008009701 dimer interface [polypeptide binding]; other site 469008009702 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 469008009703 dimer interface [polypeptide binding]; other site 469008009704 N-terminal domain interface [polypeptide binding]; other site 469008009705 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 469008009706 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 469008009707 23S rRNA interface [nucleotide binding]; other site 469008009708 L3 interface [polypeptide binding]; other site 469008009709 Predicted ATPase [General function prediction only]; Region: COG1485 469008009710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 469008009711 hypothetical protein; Provisional; Region: PRK11677 469008009712 serine endoprotease; Provisional; Region: PRK10139 469008009713 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008009714 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 469008009715 protein binding site [polypeptide binding]; other site 469008009716 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 469008009717 serine endoprotease; Provisional; Region: PRK10898 469008009718 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008009719 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 469008009720 malate dehydrogenase; Provisional; Region: PRK05086 469008009721 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 469008009722 NAD binding site [chemical binding]; other site 469008009723 dimerization interface [polypeptide binding]; other site 469008009724 Substrate binding site [chemical binding]; other site 469008009725 arginine repressor; Provisional; Region: PRK05066 469008009726 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 469008009727 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 469008009728 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008009729 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 469008009730 RNAase interaction site [polypeptide binding]; other site 469008009731 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 469008009732 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008009733 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 469008009734 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008009735 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008009736 efflux system membrane protein; Provisional; Region: PRK11594 469008009737 transcriptional regulator; Provisional; Region: PRK10632 469008009738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009739 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 469008009740 putative effector binding pocket; other site 469008009741 dimerization interface [polypeptide binding]; other site 469008009742 protease TldD; Provisional; Region: tldD; PRK10735 469008009743 hypothetical protein; Provisional; Region: PRK10899 469008009744 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008009745 ribonuclease G; Provisional; Region: PRK11712 469008009746 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 469008009747 homodimer interface [polypeptide binding]; other site 469008009748 oligonucleotide binding site [chemical binding]; other site 469008009749 Maf-like protein; Region: Maf; pfam02545 469008009750 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 469008009751 active site 469008009752 dimer interface [polypeptide binding]; other site 469008009753 rod shape-determining protein MreD; Provisional; Region: PRK11060 469008009754 rod shape-determining protein MreC; Region: mreC; TIGR00219 469008009755 rod shape-determining protein MreC; Region: MreC; pfam04085 469008009756 rod shape-determining protein MreB; Provisional; Region: PRK13927 469008009757 MreB and similar proteins; Region: MreB_like; cd10225 469008009758 nucleotide binding site [chemical binding]; other site 469008009759 Mg binding site [ion binding]; other site 469008009760 putative protofilament interaction site [polypeptide binding]; other site 469008009761 RodZ interaction site [polypeptide binding]; other site 469008009762 regulatory protein CsrD; Provisional; Region: PRK11059 469008009763 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008009764 metal binding site [ion binding]; metal-binding site 469008009765 active site 469008009766 I-site; other site 469008009767 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 469008009768 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 469008009769 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 469008009770 NADP binding site [chemical binding]; other site 469008009771 dimer interface [polypeptide binding]; other site 469008009772 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 469008009773 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 469008009774 carboxyltransferase (CT) interaction site; other site 469008009775 biotinylation site [posttranslational modification]; other site 469008009776 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 469008009777 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008009778 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469008009779 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 469008009780 hypothetical protein; Provisional; Region: PRK10633 469008009781 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 469008009782 Na binding site [ion binding]; other site 469008009783 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 469008009784 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 469008009785 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 469008009786 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 469008009787 FMN binding site [chemical binding]; other site 469008009788 active site 469008009789 catalytic residues [active] 469008009790 substrate binding site [chemical binding]; other site 469008009791 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 469008009792 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 469008009793 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 469008009794 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 469008009795 DNA methylase; Region: N6_N4_Mtase; pfam01555 469008009796 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 469008009797 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 469008009798 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008009799 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 469008009800 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 469008009801 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008009802 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008009803 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 469008009804 Protein export membrane protein; Region: SecD_SecF; cl14618 469008009805 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469008009806 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 469008009807 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 469008009808 substrate binding pocket [chemical binding]; other site 469008009809 membrane-bound complex binding site; other site 469008009810 hinge residues; other site 469008009811 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 469008009812 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 469008009813 conserved gate region; other site 469008009814 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 469008009815 dimer interface [polypeptide binding]; other site 469008009816 conserved gate region; other site 469008009817 putative PBP binding loops; other site 469008009818 ABC-ATPase subunit interface; other site 469008009819 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008009820 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 469008009821 dimer interface [polypeptide binding]; other site 469008009822 conserved gate region; other site 469008009823 putative PBP binding loops; other site 469008009824 ABC-ATPase subunit interface; other site 469008009825 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 469008009826 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008009827 Walker A/P-loop; other site 469008009828 ATP binding site [chemical binding]; other site 469008009829 Q-loop/lid; other site 469008009830 ABC transporter signature motif; other site 469008009831 Walker B; other site 469008009832 D-loop; other site 469008009833 H-loop/switch region; other site 469008009834 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 469008009835 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 469008009836 trimer interface [polypeptide binding]; other site 469008009837 putative metal binding site [ion binding]; other site 469008009838 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 469008009839 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 469008009840 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469008009841 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469008009842 shikimate binding site; other site 469008009843 NAD(P) binding site [chemical binding]; other site 469008009844 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 469008009845 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008009846 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 469008009847 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008009848 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008009849 hypothetical protein; Validated; Region: PRK03430 469008009850 hypothetical protein; Provisional; Region: PRK10736 469008009851 DNA protecting protein DprA; Region: dprA; TIGR00732 469008009852 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 469008009853 active site 469008009854 catalytic residues [active] 469008009855 metal binding site [ion binding]; metal-binding site 469008009856 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 469008009857 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 469008009858 putative active site [active] 469008009859 substrate binding site [chemical binding]; other site 469008009860 putative cosubstrate binding site; other site 469008009861 catalytic site [active] 469008009862 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 469008009863 substrate binding site [chemical binding]; other site 469008009864 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 469008009865 putative RNA binding site [nucleotide binding]; other site 469008009866 16S rRNA methyltransferase B; Provisional; Region: PRK10901 469008009867 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 469008009868 S-adenosylmethionine binding site [chemical binding]; other site 469008009869 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 469008009870 TrkA-N domain; Region: TrkA_N; pfam02254 469008009871 TrkA-C domain; Region: TrkA_C; pfam02080 469008009872 TrkA-N domain; Region: TrkA_N; pfam02254 469008009873 TrkA-C domain; Region: TrkA_C; pfam02080 469008009874 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 469008009875 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 469008009876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 469008009877 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 469008009878 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 469008009879 DNA binding residues [nucleotide binding] 469008009880 dimer interface [polypeptide binding]; other site 469008009881 metal binding site [ion binding]; metal-binding site 469008009882 hypothetical protein; Provisional; Region: PRK10203 469008009883 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 469008009884 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 469008009885 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 469008009886 alphaNTD homodimer interface [polypeptide binding]; other site 469008009887 alphaNTD - beta interaction site [polypeptide binding]; other site 469008009888 alphaNTD - beta' interaction site [polypeptide binding]; other site 469008009889 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 469008009890 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 469008009891 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 469008009892 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 469008009893 RNA binding surface [nucleotide binding]; other site 469008009894 30S ribosomal protein S11; Validated; Region: PRK05309 469008009895 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 469008009896 30S ribosomal protein S13; Region: bact_S13; TIGR03631 469008009897 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 469008009898 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 469008009899 SecY translocase; Region: SecY; pfam00344 469008009900 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 469008009901 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 469008009902 23S rRNA binding site [nucleotide binding]; other site 469008009903 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 469008009904 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 469008009905 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 469008009906 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 469008009907 23S rRNA interface [nucleotide binding]; other site 469008009908 5S rRNA interface [nucleotide binding]; other site 469008009909 L27 interface [polypeptide binding]; other site 469008009910 L5 interface [polypeptide binding]; other site 469008009911 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 469008009912 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469008009913 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469008009914 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 469008009915 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 469008009916 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 469008009917 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 469008009918 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 469008009919 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 469008009920 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 469008009921 RNA binding site [nucleotide binding]; other site 469008009922 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 469008009923 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 469008009924 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 469008009925 23S rRNA interface [nucleotide binding]; other site 469008009926 putative translocon interaction site; other site 469008009927 signal recognition particle (SRP54) interaction site; other site 469008009928 L23 interface [polypeptide binding]; other site 469008009929 trigger factor interaction site; other site 469008009930 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 469008009931 23S rRNA interface [nucleotide binding]; other site 469008009932 5S rRNA interface [nucleotide binding]; other site 469008009933 putative antibiotic binding site [chemical binding]; other site 469008009934 L25 interface [polypeptide binding]; other site 469008009935 L27 interface [polypeptide binding]; other site 469008009936 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 469008009937 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 469008009938 G-X-X-G motif; other site 469008009939 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 469008009940 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 469008009941 protein-rRNA interface [nucleotide binding]; other site 469008009942 putative translocon binding site; other site 469008009943 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 469008009944 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 469008009945 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 469008009946 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 469008009947 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 469008009948 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 469008009949 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 469008009950 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 469008009951 protein secretion protein GspB; Provisional; Region: PRK09697 469008009952 AAA domain; Region: AAA_22; pfam13401 469008009953 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469008009954 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 469008009955 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 469008009956 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008009957 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008009958 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 469008009959 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 469008009960 Walker A motif; other site 469008009961 ATP binding site [chemical binding]; other site 469008009962 Walker B motif; other site 469008009963 type II secretion system protein F; Region: GspF; TIGR02120 469008009964 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008009965 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008009966 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008009967 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 469008009968 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 469008009969 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 469008009970 type II secretion system protein I; Region: gspI; TIGR01707 469008009971 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 469008009972 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 469008009973 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008009974 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 469008009975 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 469008009976 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 469008009977 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 469008009978 GspL periplasmic domain; Region: GspL_C; pfam12693 469008009979 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 469008009980 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 469008009981 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469008009982 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 469008009983 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 469008009984 heme binding site [chemical binding]; other site 469008009985 ferroxidase pore; other site 469008009986 ferroxidase diiron center [ion binding]; other site 469008009987 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 469008009988 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 469008009989 aromatic chitin/cellulose binding site residues [chemical binding]; other site 469008009990 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 469008009991 aromatic chitin/cellulose binding site residues [chemical binding]; other site 469008009992 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 469008009993 active site 469008009994 elongation factor Tu; Reviewed; Region: PRK00049 469008009995 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469008009996 G1 box; other site 469008009997 GEF interaction site [polypeptide binding]; other site 469008009998 GTP/Mg2+ binding site [chemical binding]; other site 469008009999 Switch I region; other site 469008010000 G2 box; other site 469008010001 G3 box; other site 469008010002 Switch II region; other site 469008010003 G4 box; other site 469008010004 G5 box; other site 469008010005 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 469008010006 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 469008010007 Antibiotic Binding Site [chemical binding]; other site 469008010008 elongation factor G; Reviewed; Region: PRK00007 469008010009 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 469008010010 G1 box; other site 469008010011 putative GEF interaction site [polypeptide binding]; other site 469008010012 GTP/Mg2+ binding site [chemical binding]; other site 469008010013 Switch I region; other site 469008010014 G2 box; other site 469008010015 G3 box; other site 469008010016 Switch II region; other site 469008010017 G4 box; other site 469008010018 G5 box; other site 469008010019 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 469008010020 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 469008010021 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 469008010022 30S ribosomal protein S7; Validated; Region: PRK05302 469008010023 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 469008010024 S17 interaction site [polypeptide binding]; other site 469008010025 S8 interaction site; other site 469008010026 16S rRNA interaction site [nucleotide binding]; other site 469008010027 streptomycin interaction site [chemical binding]; other site 469008010028 23S rRNA interaction site [nucleotide binding]; other site 469008010029 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 469008010030 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 469008010031 sulfur relay protein TusC; Validated; Region: PRK00211 469008010032 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 469008010033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 469008010034 YheO-like PAS domain; Region: PAS_6; pfam08348 469008010035 HTH domain; Region: HTH_22; pfam13309 469008010036 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 469008010037 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 469008010038 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008010039 phi X174 lysis protein; Provisional; Region: PRK02793 469008010040 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 469008010041 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008010042 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 469008010043 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 469008010044 TrkA-N domain; Region: TrkA_N; pfam02254 469008010045 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 469008010046 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 469008010047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008010048 Walker A/P-loop; other site 469008010049 ATP binding site [chemical binding]; other site 469008010050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008010051 ABC transporter signature motif; other site 469008010052 Walker B; other site 469008010053 D-loop; other site 469008010054 ABC transporter; Region: ABC_tran_2; pfam12848 469008010055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008010056 putative hydrolase; Provisional; Region: PRK10985 469008010057 hypothetical protein; Provisional; Region: PRK04966 469008010058 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 469008010059 active site 469008010060 hypothetical protein; Provisional; Region: PRK10738 469008010061 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 469008010062 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 469008010063 ligand binding site [chemical binding]; other site 469008010064 flexible hinge region; other site 469008010065 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 469008010066 putative switch regulator; other site 469008010067 non-specific DNA interactions [nucleotide binding]; other site 469008010068 DNA binding site [nucleotide binding] 469008010069 sequence specific DNA binding site [nucleotide binding]; other site 469008010070 putative cAMP binding site [chemical binding]; other site 469008010071 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 469008010072 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 469008010073 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008010074 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 469008010075 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 469008010076 inhibitor-cofactor binding pocket; inhibition site 469008010077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010078 catalytic residue [active] 469008010079 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 469008010080 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469008010081 glutamine binding [chemical binding]; other site 469008010082 catalytic triad [active] 469008010083 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 469008010084 cell filamentation protein Fic; Provisional; Region: PRK10347 469008010085 hypothetical protein; Provisional; Region: PRK10204 469008010086 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 469008010087 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 469008010088 substrate binding site [chemical binding]; other site 469008010089 putative transporter; Provisional; Region: PRK03699 469008010090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010091 putative substrate translocation pore; other site 469008010092 nitrite reductase subunit NirD; Provisional; Region: PRK14989 469008010093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008010094 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008010095 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008010096 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008010097 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 469008010098 nitrite transporter NirC; Provisional; Region: PRK11562 469008010099 siroheme synthase; Provisional; Region: cysG; PRK10637 469008010100 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 469008010101 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 469008010102 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 469008010103 active site 469008010104 SAM binding site [chemical binding]; other site 469008010105 homodimer interface [polypeptide binding]; other site 469008010106 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 469008010107 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 469008010108 hypothetical protein; Provisional; Region: PHA02764 469008010109 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 469008010110 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 469008010111 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 469008010112 dimer interface [polypeptide binding]; other site 469008010113 active site 469008010114 fructoselysine 3-epimerase; Provisional; Region: PRK09856 469008010115 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 469008010116 AP (apurinic/apyrimidinic) site pocket; other site 469008010117 DNA interaction; other site 469008010118 Metal-binding active site; metal-binding site 469008010119 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 469008010120 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008010121 substrate binding site [chemical binding]; other site 469008010122 ATP binding site [chemical binding]; other site 469008010123 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 469008010124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008010125 DNA-binding site [nucleotide binding]; DNA binding site 469008010126 UTRA domain; Region: UTRA; pfam07702 469008010127 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008010128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008010129 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008010130 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008010131 Protein of unknown function; Region: YhfT; pfam10797 469008010132 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 469008010133 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469008010134 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 469008010135 active site 469008010136 substrate binding pocket [chemical binding]; other site 469008010137 homodimer interaction site [polypeptide binding]; other site 469008010138 putative mutase; Provisional; Region: PRK12383 469008010139 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 469008010140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 469008010141 dimer interface [polypeptide binding]; other site 469008010142 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 469008010143 active site 469008010144 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008010145 substrate binding site [chemical binding]; other site 469008010146 catalytic residue [active] 469008010147 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 469008010148 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 469008010149 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 469008010150 active site 469008010151 HIGH motif; other site 469008010152 dimer interface [polypeptide binding]; other site 469008010153 KMSKS motif; other site 469008010154 phosphoglycolate phosphatase; Provisional; Region: PRK13222 469008010155 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 469008010156 motif II; other site 469008010157 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 469008010158 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 469008010159 substrate binding site [chemical binding]; other site 469008010160 hexamer interface [polypeptide binding]; other site 469008010161 metal binding site [ion binding]; metal-binding site 469008010162 DNA adenine methylase; Provisional; Region: PRK10904 469008010163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 469008010164 cell division protein DamX; Validated; Region: PRK10905 469008010165 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 469008010166 active site 469008010167 dimer interface [polypeptide binding]; other site 469008010168 metal binding site [ion binding]; metal-binding site 469008010169 shikimate kinase; Reviewed; Region: aroK; PRK00131 469008010170 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 469008010171 ADP binding site [chemical binding]; other site 469008010172 magnesium binding site [ion binding]; other site 469008010173 putative shikimate binding site; other site 469008010174 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 469008010175 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008010176 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008010177 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 469008010178 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 469008010179 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 469008010180 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 469008010181 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 469008010182 Transglycosylase; Region: Transgly; pfam00912 469008010183 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008010184 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 469008010185 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 469008010186 ADP-ribose binding site [chemical binding]; other site 469008010187 dimer interface [polypeptide binding]; other site 469008010188 active site 469008010189 nudix motif; other site 469008010190 metal binding site [ion binding]; metal-binding site 469008010191 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 469008010192 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 469008010193 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 469008010194 motif II; other site 469008010195 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 469008010196 RNA binding surface [nucleotide binding]; other site 469008010197 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 469008010198 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 469008010199 dimerization interface [polypeptide binding]; other site 469008010200 domain crossover interface; other site 469008010201 redox-dependent activation switch; other site 469008010202 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 469008010203 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 469008010204 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 469008010205 active site 469008010206 substrate-binding site [chemical binding]; other site 469008010207 metal-binding site [ion binding] 469008010208 ATP binding site [chemical binding]; other site 469008010209 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 469008010210 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 469008010211 dimerization interface [polypeptide binding]; other site 469008010212 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 469008010213 dimer interface [polypeptide binding]; other site 469008010214 phosphorylation site [posttranslational modification] 469008010215 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 469008010216 ATP binding site [chemical binding]; other site 469008010217 G-X-G motif; other site 469008010218 osmolarity response regulator; Provisional; Region: ompR; PRK09468 469008010219 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 469008010220 active site 469008010221 phosphorylation site [posttranslational modification] 469008010222 intermolecular recognition site; other site 469008010223 dimerization interface [polypeptide binding]; other site 469008010224 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 469008010225 DNA binding site [nucleotide binding] 469008010226 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 469008010227 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 469008010228 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008010229 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 469008010230 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 469008010231 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 469008010232 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 469008010233 RNA binding site [nucleotide binding]; other site 469008010234 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 469008010235 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 469008010236 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 469008010237 G1 box; other site 469008010238 GTP/Mg2+ binding site [chemical binding]; other site 469008010239 Switch I region; other site 469008010240 G2 box; other site 469008010241 G3 box; other site 469008010242 Switch II region; other site 469008010243 G4 box; other site 469008010244 G5 box; other site 469008010245 Nucleoside recognition; Region: Gate; pfam07670 469008010246 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 469008010247 Nucleoside recognition; Region: Gate; pfam07670 469008010248 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 469008010249 putative transposase; Provisional; Region: PRK09857 469008010250 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008010251 carboxylesterase BioH; Provisional; Region: PRK10349 469008010252 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 469008010253 DNA utilization protein GntX; Provisional; Region: PRK11595 469008010254 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008010255 active site 469008010256 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 469008010257 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 469008010258 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 469008010259 high-affinity gluconate transporter; Provisional; Region: PRK14984 469008010260 gluconate transporter; Region: gntP; TIGR00791 469008010261 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 469008010262 4-alpha-glucanotransferase; Region: malQ; TIGR00217 469008010263 maltodextrin phosphorylase; Provisional; Region: PRK14985 469008010264 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 469008010265 homodimer interface [polypeptide binding]; other site 469008010266 active site pocket [active] 469008010267 transcriptional regulator MalT; Provisional; Region: PRK04841 469008010268 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 469008010269 DNA binding residues [nucleotide binding] 469008010270 dimerization interface [polypeptide binding]; other site 469008010271 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 469008010272 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 469008010273 putative active site [active] 469008010274 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 469008010275 hypothetical protein; Reviewed; Region: PRK09588 469008010276 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 469008010277 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 469008010278 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 469008010279 Walker A motif; other site 469008010280 ATP binding site [chemical binding]; other site 469008010281 Walker B motif; other site 469008010282 arginine finger; other site 469008010283 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 469008010284 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008010285 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008010286 intramembrane serine protease GlpG; Provisional; Region: PRK10907 469008010287 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 469008010288 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 469008010289 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 469008010290 active site residue [active] 469008010291 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 469008010292 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 469008010293 glycogen phosphorylase; Provisional; Region: PRK14986 469008010294 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 469008010295 homodimer interface [polypeptide binding]; other site 469008010296 active site pocket [active] 469008010297 glycogen synthase; Provisional; Region: glgA; PRK00654 469008010298 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 469008010299 ADP-binding pocket [chemical binding]; other site 469008010300 homodimer interface [polypeptide binding]; other site 469008010301 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 469008010302 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469008010303 ligand binding site; other site 469008010304 oligomer interface; other site 469008010305 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 469008010306 sulfate 1 binding site; other site 469008010307 glycogen debranching enzyme; Provisional; Region: PRK03705 469008010308 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 469008010309 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 469008010310 active site 469008010311 catalytic site [active] 469008010312 glycogen branching enzyme; Provisional; Region: PRK05402 469008010313 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 469008010314 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 469008010315 active site 469008010316 catalytic site [active] 469008010317 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 469008010318 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 469008010319 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008010320 putative antibiotic transporter; Provisional; Region: PRK10739 469008010321 low affinity gluconate transporter; Provisional; Region: PRK10472 469008010322 gluconate transporter; Region: gntP; TIGR00791 469008010323 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 469008010324 ATP-binding site [chemical binding]; other site 469008010325 Gluconate-6-phosphate binding site [chemical binding]; other site 469008010326 Shikimate kinase; Region: SKI; pfam01202 469008010327 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 469008010328 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008010329 DNA binding site [nucleotide binding] 469008010330 domain linker motif; other site 469008010331 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 469008010332 putative ligand binding site [chemical binding]; other site 469008010333 putative dimerization interface [polypeptide binding]; other site 469008010334 Pirin-related protein [General function prediction only]; Region: COG1741 469008010335 Pirin; Region: Pirin; pfam02678 469008010336 putative oxidoreductase; Provisional; Region: PRK10206 469008010337 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008010338 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008010339 putative acetyltransferase YhhY; Provisional; Region: PRK10140 469008010340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008010341 Coenzyme A binding pocket [chemical binding]; other site 469008010342 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 469008010343 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 469008010344 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 469008010345 hypothetical protein; Provisional; Region: PRK10350 469008010346 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 469008010347 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 469008010348 putative active site [active] 469008010349 catalytic site [active] 469008010350 putative metal binding site [ion binding]; other site 469008010351 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 469008010352 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008010353 Walker A/P-loop; other site 469008010354 ATP binding site [chemical binding]; other site 469008010355 Q-loop/lid; other site 469008010356 ABC transporter signature motif; other site 469008010357 Walker B; other site 469008010358 D-loop; other site 469008010359 H-loop/switch region; other site 469008010360 TOBE domain; Region: TOBE_2; pfam08402 469008010361 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008010362 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 469008010363 dimer interface [polypeptide binding]; other site 469008010364 conserved gate region; other site 469008010365 putative PBP binding loops; other site 469008010366 ABC-ATPase subunit interface; other site 469008010367 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 469008010368 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 469008010369 dimer interface [polypeptide binding]; other site 469008010370 conserved gate region; other site 469008010371 putative PBP binding loops; other site 469008010372 ABC-ATPase subunit interface; other site 469008010373 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 469008010374 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 469008010375 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 469008010376 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 469008010377 Walker A/P-loop; other site 469008010378 ATP binding site [chemical binding]; other site 469008010379 Q-loop/lid; other site 469008010380 ABC transporter signature motif; other site 469008010381 Walker B; other site 469008010382 D-loop; other site 469008010383 H-loop/switch region; other site 469008010384 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 469008010385 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 469008010386 Walker A/P-loop; other site 469008010387 ATP binding site [chemical binding]; other site 469008010388 Q-loop/lid; other site 469008010389 ABC transporter signature motif; other site 469008010390 Walker B; other site 469008010391 D-loop; other site 469008010392 H-loop/switch region; other site 469008010393 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 469008010394 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 469008010395 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 469008010396 TM-ABC transporter signature motif; other site 469008010397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008010398 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 469008010399 TM-ABC transporter signature motif; other site 469008010400 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469008010401 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 469008010402 dimerization interface [polypeptide binding]; other site 469008010403 ligand binding site [chemical binding]; other site 469008010404 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 469008010405 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469008010406 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 469008010407 dimerization interface [polypeptide binding]; other site 469008010408 ligand binding site [chemical binding]; other site 469008010409 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 469008010410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008010411 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 469008010412 DNA binding residues [nucleotide binding] 469008010413 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 469008010414 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 469008010415 cell division protein FtsE; Provisional; Region: PRK10908 469008010416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008010417 Walker A/P-loop; other site 469008010418 ATP binding site [chemical binding]; other site 469008010419 Q-loop/lid; other site 469008010420 ABC transporter signature motif; other site 469008010421 Walker B; other site 469008010422 D-loop; other site 469008010423 H-loop/switch region; other site 469008010424 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 469008010425 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 469008010426 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 469008010427 P loop; other site 469008010428 GTP binding site [chemical binding]; other site 469008010429 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 469008010430 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 469008010431 S-adenosylmethionine binding site [chemical binding]; other site 469008010432 hypothetical protein; Provisional; Region: PRK10910 469008010433 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 469008010434 Predicted membrane protein [Function unknown]; Region: COG3714 469008010435 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 469008010436 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 469008010437 metal-binding site [ion binding] 469008010438 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008010439 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 469008010440 CPxP motif; other site 469008010441 hypothetical protein; Provisional; Region: PRK11212 469008010442 hypothetical protein; Provisional; Region: PRK11615 469008010443 major facilitator superfamily transporter; Provisional; Region: PRK05122 469008010444 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010445 putative substrate translocation pore; other site 469008010446 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 469008010447 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008010448 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 469008010449 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 469008010450 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008010451 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 469008010452 substrate binding site [chemical binding]; other site 469008010453 nickel transporter permease NikB; Provisional; Region: PRK10352 469008010454 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 469008010455 dimer interface [polypeptide binding]; other site 469008010456 conserved gate region; other site 469008010457 putative PBP binding loops; other site 469008010458 ABC-ATPase subunit interface; other site 469008010459 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 469008010460 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 469008010461 dimer interface [polypeptide binding]; other site 469008010462 conserved gate region; other site 469008010463 putative PBP binding loops; other site 469008010464 ABC-ATPase subunit interface; other site 469008010465 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 469008010466 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010467 Walker A/P-loop; other site 469008010468 ATP binding site [chemical binding]; other site 469008010469 Q-loop/lid; other site 469008010470 ABC transporter signature motif; other site 469008010471 Walker B; other site 469008010472 D-loop; other site 469008010473 H-loop/switch region; other site 469008010474 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008010475 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 469008010476 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010477 Walker A/P-loop; other site 469008010478 ATP binding site [chemical binding]; other site 469008010479 Q-loop/lid; other site 469008010480 ABC transporter signature motif; other site 469008010481 Walker B; other site 469008010482 D-loop; other site 469008010483 H-loop/switch region; other site 469008010484 nickel responsive regulator; Provisional; Region: PRK02967 469008010485 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 469008010486 PAAR motif; Region: PAAR_motif; cl15808 469008010487 RHS Repeat; Region: RHS_repeat; pfam05593 469008010488 RHS Repeat; Region: RHS_repeat; pfam05593 469008010489 RHS Repeat; Region: RHS_repeat; pfam05593 469008010490 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008010491 RHS Repeat; Region: RHS_repeat; pfam05593 469008010492 RHS Repeat; Region: RHS_repeat; pfam05593 469008010493 RHS protein; Region: RHS; pfam03527 469008010494 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008010495 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 469008010496 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008010497 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008010498 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008010499 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008010500 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008010501 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008010502 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008010503 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 469008010504 Walker A/P-loop; other site 469008010505 ATP binding site [chemical binding]; other site 469008010506 Q-loop/lid; other site 469008010507 ABC transporter signature motif; other site 469008010508 Walker B; other site 469008010509 D-loop; other site 469008010510 H-loop/switch region; other site 469008010511 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008010512 Walker A/P-loop; other site 469008010513 ATP binding site [chemical binding]; other site 469008010514 Q-loop/lid; other site 469008010515 ABC transporter signature motif; other site 469008010516 Walker B; other site 469008010517 D-loop; other site 469008010518 H-loop/switch region; other site 469008010519 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008010520 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 469008010521 HlyD family secretion protein; Region: HlyD; pfam00529 469008010522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010523 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010524 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 469008010525 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 469008010526 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 469008010527 Predicted flavoproteins [General function prediction only]; Region: COG2081 469008010528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008010529 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008010530 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008010531 universal stress protein UspB; Provisional; Region: PRK04960 469008010532 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 469008010533 Ligand Binding Site [chemical binding]; other site 469008010534 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 469008010535 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010536 putative substrate translocation pore; other site 469008010537 POT family; Region: PTR2; pfam00854 469008010538 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 469008010539 S-adenosylmethionine binding site [chemical binding]; other site 469008010540 oligopeptidase A; Provisional; Region: PRK10911 469008010541 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 469008010542 active site 469008010543 Zn binding site [ion binding]; other site 469008010544 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 469008010545 glutathione reductase; Validated; Region: PRK06116 469008010546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008010547 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008010548 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008010549 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 469008010550 dimerization interface [polypeptide binding]; other site 469008010551 putative DNA binding site [nucleotide binding]; other site 469008010552 putative Zn2+ binding site [ion binding]; other site 469008010553 arsenical pump membrane protein; Provisional; Region: PRK15445 469008010554 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 469008010555 transmembrane helices; other site 469008010556 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 469008010557 ArsC family; Region: ArsC; pfam03960 469008010558 catalytic residues [active] 469008010559 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 469008010560 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008010561 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 469008010562 DNA binding residues [nucleotide binding] 469008010563 dimerization interface [polypeptide binding]; other site 469008010564 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 469008010565 MgtC family; Region: MgtC; pfam02308 469008010566 acid-resistance protein; Provisional; Region: hdeB; PRK11566 469008010567 acid-resistance protein; Provisional; Region: PRK10208 469008010568 acid-resistance membrane protein; Provisional; Region: PRK10209 469008010569 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 469008010570 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469008010571 pyruvate kinase; Provisional; Region: PRK05826 469008010572 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 469008010573 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010574 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010575 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 469008010576 Protein export membrane protein; Region: SecD_SecF; cl14618 469008010577 transcriptional regulator YdeO; Provisional; Region: PRK09940 469008010578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010579 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 469008010580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010581 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 469008010582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010583 catalytic residue [active] 469008010584 Haem-binding domain; Region: Haem_bd; pfam14376 469008010585 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 469008010586 trehalase; Provisional; Region: treF; PRK13270 469008010587 Trehalase; Region: Trehalase; pfam01204 469008010588 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008010589 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 469008010590 DNA binding residues [nucleotide binding] 469008010591 dimerization interface [polypeptide binding]; other site 469008010592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008010593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008010594 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 469008010595 putative effector binding pocket; other site 469008010596 putative dimerization interface [polypeptide binding]; other site 469008010597 inner membrane protein YhjD; Region: TIGR00766 469008010598 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010599 metabolite-proton symporter; Region: 2A0106; TIGR00883 469008010600 putative substrate translocation pore; other site 469008010601 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 469008010602 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008010603 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 469008010604 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008010605 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 469008010606 substrate binding site [chemical binding]; other site 469008010607 ATP binding site [chemical binding]; other site 469008010608 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008010609 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008010610 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 469008010611 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008010612 putative diguanylate cyclase; Provisional; Region: PRK13561 469008010613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008010614 metal binding site [ion binding]; metal-binding site 469008010615 active site 469008010616 I-site; other site 469008010617 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 469008010618 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 469008010619 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 469008010620 binding surface 469008010621 TPR motif; other site 469008010622 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 469008010623 binding surface 469008010624 TPR motif; other site 469008010625 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 469008010626 endo-1,4-D-glucanase; Provisional; Region: PRK11097 469008010627 cellulose synthase regulator protein; Provisional; Region: PRK11114 469008010628 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 469008010629 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 469008010630 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 469008010631 DXD motif; other site 469008010632 PilZ domain; Region: PilZ; pfam07238 469008010633 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 469008010634 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 469008010635 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 469008010636 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 469008010637 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 469008010638 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008010639 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008010640 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008010641 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008010642 serine transporter; Region: stp; TIGR00814 469008010643 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 469008010644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010645 Walker A/P-loop; other site 469008010646 ATP binding site [chemical binding]; other site 469008010647 Q-loop/lid; other site 469008010648 ABC transporter signature motif; other site 469008010649 Walker B; other site 469008010650 D-loop; other site 469008010651 H-loop/switch region; other site 469008010652 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008010653 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 469008010654 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010655 Walker A/P-loop; other site 469008010656 ATP binding site [chemical binding]; other site 469008010657 Q-loop/lid; other site 469008010658 ABC transporter signature motif; other site 469008010659 Walker B; other site 469008010660 D-loop; other site 469008010661 H-loop/switch region; other site 469008010662 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008010663 dipeptide transporter; Provisional; Region: PRK10913 469008010664 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008010665 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 469008010666 dimer interface [polypeptide binding]; other site 469008010667 conserved gate region; other site 469008010668 putative PBP binding loops; other site 469008010669 ABC-ATPase subunit interface; other site 469008010670 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469008010671 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 469008010672 dimer interface [polypeptide binding]; other site 469008010673 conserved gate region; other site 469008010674 putative PBP binding loops; other site 469008010675 ABC-ATPase subunit interface; other site 469008010676 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008010677 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 469008010678 peptide binding site [polypeptide binding]; other site 469008010679 phosphoethanolamine transferase; Provisional; Region: PRK11560 469008010680 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008010681 Sulfatase; Region: Sulfatase; pfam00884 469008010682 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 469008010683 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010684 putative substrate translocation pore; other site 469008010685 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 469008010686 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 469008010687 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008010688 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008010689 Coenzyme A binding pocket [chemical binding]; other site 469008010690 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 469008010691 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 469008010692 molybdopterin cofactor binding site [chemical binding]; other site 469008010693 substrate binding site [chemical binding]; other site 469008010694 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 469008010695 molybdopterin cofactor binding site; other site 469008010696 putative outer membrane lipoprotein; Provisional; Region: PRK10510 469008010697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008010698 ligand binding site [chemical binding]; other site 469008010699 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 469008010700 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 469008010701 dimerization interface [polypeptide binding]; other site 469008010702 ligand binding site [chemical binding]; other site 469008010703 NADP binding site [chemical binding]; other site 469008010704 catalytic site [active] 469008010705 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 469008010706 Predicted transcriptional regulator [Transcription]; Region: COG2944 469008010707 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 469008010708 non-specific DNA binding site [nucleotide binding]; other site 469008010709 salt bridge; other site 469008010710 sequence-specific DNA binding site [nucleotide binding]; other site 469008010711 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 469008010712 DNA-binding site [nucleotide binding]; DNA binding site 469008010713 RNA-binding motif; other site 469008010714 small toxic polypeptide; Provisional; Region: PRK09759 469008010715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008010716 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010717 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010718 putative transposase OrfB; Reviewed; Region: PHA02517 469008010719 HTH-like domain; Region: HTH_21; pfam13276 469008010720 Integrase core domain; Region: rve; pfam00665 469008010721 Integrase core domain; Region: rve_2; pfam13333 469008010722 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 469008010723 DALR anticodon binding domain; Region: DALR_1; pfam05746 469008010724 anticodon binding site; other site 469008010725 tRNA binding surface [nucleotide binding]; other site 469008010726 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 469008010727 dimer interface [polypeptide binding]; other site 469008010728 motif 1; other site 469008010729 active site 469008010730 motif 2; other site 469008010731 motif 3; other site 469008010732 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 469008010733 YsaB-like lipoprotein; Region: YsaB; pfam13983 469008010734 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 469008010735 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008010736 hypothetical protein; Provisional; Region: PRK11383 469008010737 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010738 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010739 hypothetical protein; Provisional; Region: PRK11403 469008010740 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010741 xylulokinase; Provisional; Region: PRK15027 469008010742 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 469008010743 N- and C-terminal domain interface [polypeptide binding]; other site 469008010744 active site 469008010745 MgATP binding site [chemical binding]; other site 469008010746 catalytic site [active] 469008010747 metal binding site [ion binding]; metal-binding site 469008010748 xylulose binding site [chemical binding]; other site 469008010749 homodimer interface [polypeptide binding]; other site 469008010750 xylose isomerase; Provisional; Region: PRK05474 469008010751 xylose isomerase; Region: xylose_isom_A; TIGR02630 469008010752 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 469008010753 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 469008010754 putative ligand binding site [chemical binding]; other site 469008010755 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008010756 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 469008010757 TM-ABC transporter signature motif; other site 469008010758 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 469008010759 putative dimerization interface [polypeptide binding]; other site 469008010760 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008010761 putative ligand binding site [chemical binding]; other site 469008010762 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010763 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008010764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010765 hypothetical protein; Provisional; Region: PRK10356 469008010766 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 469008010767 alpha-amylase; Reviewed; Region: malS; PRK09505 469008010768 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 469008010769 active site 469008010770 catalytic site [active] 469008010771 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 469008010772 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 469008010773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010774 homodimer interface [polypeptide binding]; other site 469008010775 catalytic residue [active] 469008010776 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008010777 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 469008010778 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008010779 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008010780 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008010781 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 469008010782 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 469008010783 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 469008010784 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 469008010785 DctM-like transporters; Region: DctM; pfam06808 469008010786 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469008010787 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 469008010788 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 469008010789 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 469008010790 putative N- and C-terminal domain interface [polypeptide binding]; other site 469008010791 putative active site [active] 469008010792 MgATP binding site [chemical binding]; other site 469008010793 catalytic site [active] 469008010794 metal binding site [ion binding]; metal-binding site 469008010795 putative xylulose binding site [chemical binding]; other site 469008010796 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 469008010797 active site 469008010798 dimer interface [polypeptide binding]; other site 469008010799 magnesium binding site [ion binding]; other site 469008010800 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 469008010801 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 469008010802 AP (apurinic/apyrimidinic) site pocket; other site 469008010803 DNA interaction; other site 469008010804 Metal-binding active site; metal-binding site 469008010805 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008010806 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 469008010807 intersubunit interface [polypeptide binding]; other site 469008010808 active site 469008010809 Zn2+ binding site [ion binding]; other site 469008010810 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008010811 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008010812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010813 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008010814 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469008010815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 469008010816 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 469008010817 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 469008010818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008010819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008010820 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 469008010821 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008010822 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010823 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010824 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 469008010825 FlxA-like protein; Region: FlxA; pfam14282 469008010826 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 469008010827 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008010828 NAD(P) binding site [chemical binding]; other site 469008010829 catalytic residues [active] 469008010830 putative alcohol dehydrogenase; Provisional; Region: PRK09860 469008010831 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 469008010832 dimer interface [polypeptide binding]; other site 469008010833 active site 469008010834 metal binding site [ion binding]; metal-binding site 469008010835 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 469008010836 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 469008010837 G1 box; other site 469008010838 putative GEF interaction site [polypeptide binding]; other site 469008010839 GTP/Mg2+ binding site [chemical binding]; other site 469008010840 Switch I region; other site 469008010841 G2 box; other site 469008010842 G3 box; other site 469008010843 Switch II region; other site 469008010844 G4 box; other site 469008010845 G5 box; other site 469008010846 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 469008010847 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 469008010848 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 469008010849 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 469008010850 selenocysteine synthase; Provisional; Region: PRK04311 469008010851 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 469008010852 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 469008010853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008010854 catalytic residue [active] 469008010855 putative glutathione S-transferase; Provisional; Region: PRK10357 469008010856 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 469008010857 putative C-terminal domain interface [polypeptide binding]; other site 469008010858 putative GSH binding site (G-site) [chemical binding]; other site 469008010859 putative dimer interface [polypeptide binding]; other site 469008010860 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 469008010861 dimer interface [polypeptide binding]; other site 469008010862 N-terminal domain interface [polypeptide binding]; other site 469008010863 putative substrate binding pocket (H-site) [chemical binding]; other site 469008010864 PAAR motif; Region: PAAR_motif; cl15808 469008010865 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008010866 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008010867 putative lyase; Provisional; Region: PRK09687 469008010868 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008010869 RHS protein; Region: RHS; pfam03527 469008010870 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008010871 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008010872 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008010873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010874 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010875 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 469008010876 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 469008010877 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 469008010878 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 469008010879 active site 469008010880 P-loop; other site 469008010881 phosphorylation site [posttranslational modification] 469008010882 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 469008010883 active site 469008010884 phosphorylation site [posttranslational modification] 469008010885 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 469008010886 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008010887 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008010888 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 469008010889 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 469008010890 hypothetical protein; Provisional; Region: PRK11020 469008010891 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 469008010892 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 469008010893 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469008010894 trimer interface [polypeptide binding]; other site 469008010895 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469008010896 trimer interface [polypeptide binding]; other site 469008010897 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469008010898 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 469008010899 trimer interface [polypeptide binding]; other site 469008010900 Haemagglutinin; Region: HIM; pfam05662 469008010901 Haemagglutinin; Region: HIM; pfam05662 469008010902 YadA-like C-terminal region; Region: YadA; pfam03895 469008010903 L-lactate permease; Provisional; Region: PRK10420 469008010904 glycolate transporter; Provisional; Region: PRK09695 469008010905 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 469008010906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008010907 DNA-binding site [nucleotide binding]; DNA binding site 469008010908 FCD domain; Region: FCD; pfam07729 469008010909 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 469008010910 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 469008010911 phosphate binding site [ion binding]; other site 469008010912 putative rRNA methylase; Provisional; Region: PRK10358 469008010913 serine acetyltransferase; Provisional; Region: cysE; PRK11132 469008010914 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 469008010915 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 469008010916 trimer interface [polypeptide binding]; other site 469008010917 active site 469008010918 substrate binding site [chemical binding]; other site 469008010919 CoA binding site [chemical binding]; other site 469008010920 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 469008010921 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469008010922 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 469008010923 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 469008010924 SecA binding site; other site 469008010925 Preprotein binding site; other site 469008010926 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 469008010927 GSH binding site [chemical binding]; other site 469008010928 catalytic residues [active] 469008010929 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 469008010930 active site residue [active] 469008010931 phosphoglyceromutase; Provisional; Region: PRK05434 469008010932 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 469008010933 AmiB activator; Provisional; Region: PRK11637 469008010934 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 469008010935 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008010936 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 469008010937 NodB motif; other site 469008010938 putative active site [active] 469008010939 putative catalytic site [active] 469008010940 Zn binding site [ion binding]; other site 469008010941 putative glycosyl transferase; Provisional; Region: PRK10073 469008010942 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 469008010943 active site 469008010944 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 469008010945 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469008010946 NAD(P) binding site [chemical binding]; other site 469008010947 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008010948 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 469008010949 substrate-cofactor binding pocket; other site 469008010950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010951 catalytic residue [active] 469008010952 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 469008010953 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 469008010954 NADP binding site [chemical binding]; other site 469008010955 homopentamer interface [polypeptide binding]; other site 469008010956 substrate binding site [chemical binding]; other site 469008010957 active site 469008010958 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469008010959 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 469008010960 putative active site [active] 469008010961 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469008010962 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 469008010963 putative active site [active] 469008010964 O-Antigen ligase; Region: Wzy_C; pfam04932 469008010965 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469008010966 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 469008010967 active site 469008010968 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 469008010969 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 469008010970 Ligand binding site; other site 469008010971 metal-binding site 469008010972 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 469008010973 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 469008010974 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008010975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008010976 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008010977 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008010978 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 469008010979 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 469008010980 Ligand binding site; other site 469008010981 metal-binding site 469008010982 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 469008010983 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 469008010984 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 469008010985 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469008010986 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 469008010987 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 469008010988 putative active site [active] 469008010989 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 469008010990 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 469008010991 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 469008010992 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 469008010993 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 469008010994 active site 469008010995 (T/H)XGH motif; other site 469008010996 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 469008010997 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 469008010998 DNA binding site [nucleotide binding] 469008010999 catalytic residue [active] 469008011000 H2TH interface [polypeptide binding]; other site 469008011001 putative catalytic residues [active] 469008011002 turnover-facilitating residue; other site 469008011003 intercalation triad [nucleotide binding]; other site 469008011004 8OG recognition residue [nucleotide binding]; other site 469008011005 putative reading head residues; other site 469008011006 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 469008011007 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008011008 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 469008011009 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 469008011010 hypothetical protein; Reviewed; Region: PRK00024 469008011011 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 469008011012 MPN+ (JAMM) motif; other site 469008011013 Zinc-binding site [ion binding]; other site 469008011014 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 469008011015 Flavoprotein; Region: Flavoprotein; pfam02441 469008011016 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 469008011017 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469008011018 trimer interface [polypeptide binding]; other site 469008011019 active site 469008011020 division inhibitor protein; Provisional; Region: slmA; PRK09480 469008011021 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008011022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008011023 active site 469008011024 ribonuclease PH; Reviewed; Region: rph; PRK00173 469008011025 Ribonuclease PH; Region: RNase_PH_bact; cd11362 469008011026 hexamer interface [polypeptide binding]; other site 469008011027 active site 469008011028 hypothetical protein; Provisional; Region: PRK11820 469008011029 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 469008011030 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 469008011031 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 469008011032 BRO family, N-terminal domain; Region: Bro-N; pfam02498 469008011033 Predicted membrane protein [Function unknown]; Region: COG2860 469008011034 UPF0126 domain; Region: UPF0126; pfam03458 469008011035 UPF0126 domain; Region: UPF0126; pfam03458 469008011036 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 469008011037 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 469008011038 nucleotide binding pocket [chemical binding]; other site 469008011039 K-X-D-G motif; other site 469008011040 catalytic site [active] 469008011041 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469008011042 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 469008011043 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 469008011044 catalytic site [active] 469008011045 G-X2-G-X-G-K; other site 469008011046 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 469008011047 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 469008011048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008011049 Zn2+ binding site [ion binding]; other site 469008011050 Mg2+ binding site [ion binding]; other site 469008011051 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469008011052 synthetase active site [active] 469008011053 NTP binding site [chemical binding]; other site 469008011054 metal binding site [ion binding]; metal-binding site 469008011055 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 469008011056 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469008011057 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 469008011058 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008011059 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 469008011060 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 469008011061 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 469008011062 generic binding surface II; other site 469008011063 ssDNA binding site; other site 469008011064 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 469008011065 ATP binding site [chemical binding]; other site 469008011066 putative Mg++ binding site [ion binding]; other site 469008011067 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 469008011068 nucleotide binding region [chemical binding]; other site 469008011069 ATP-binding site [chemical binding]; other site 469008011070 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 469008011071 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 469008011072 AsmA family; Region: AsmA; pfam05170 469008011073 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 469008011074 putative alpha-glucosidase; Provisional; Region: PRK10658 469008011075 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008011076 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 469008011077 active site 469008011078 homotrimer interface [polypeptide binding]; other site 469008011079 catalytic site [active] 469008011080 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 469008011081 putative transporter; Provisional; Region: PRK11462 469008011082 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469008011083 integrase; Provisional; Region: PRK09692 469008011084 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 469008011085 active site 469008011086 Int/Topo IB signature motif; other site 469008011087 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 469008011088 TPR motif; other site 469008011089 binding surface 469008011090 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008011091 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008011092 DNA binding site [nucleotide binding] 469008011093 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 469008011094 ligand binding site [chemical binding]; other site 469008011095 dimerization interface [polypeptide binding]; other site 469008011096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011097 D-galactonate transporter; Region: 2A0114; TIGR00893 469008011098 putative substrate translocation pore; other site 469008011099 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 469008011100 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008011101 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 469008011102 putative active site [active] 469008011103 putative catalytic site [active] 469008011104 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469008011105 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 469008011106 dimer interface [polypeptide binding]; other site 469008011107 ssDNA binding site [nucleotide binding]; other site 469008011108 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008011109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011110 Transposase; Region: HTH_Tnp_1; cl17663 469008011111 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 469008011112 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 469008011113 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008011114 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008011115 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 469008011116 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 469008011117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011118 Transposase; Region: HTH_Tnp_1; pfam01527 469008011119 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 469008011120 Helix-turn-helix domain; Region: HTH_38; pfam13936 469008011121 Integrase core domain; Region: rve; pfam00665 469008011122 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 469008011123 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 469008011124 Methyltransferase domain; Region: Methyltransf_27; pfam13708 469008011125 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 469008011126 sugar efflux transporter; Region: 2A0120; TIGR00899 469008011127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011128 putative substrate translocation pore; other site 469008011129 EamA-like transporter family; Region: EamA; pfam00892 469008011130 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008011131 EamA-like transporter family; Region: EamA; pfam00892 469008011132 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 469008011133 lipoprotein, YaeC family; Region: TIGR00363 469008011134 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 469008011135 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 469008011136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011137 putative substrate translocation pore; other site 469008011138 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 469008011139 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008011140 cryptic adenine deaminase; Provisional; Region: PRK10027 469008011141 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 469008011142 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 469008011143 active site 469008011144 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 469008011145 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 469008011146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011147 putative substrate translocation pore; other site 469008011148 regulatory protein UhpC; Provisional; Region: PRK11663 469008011149 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011150 putative substrate translocation pore; other site 469008011151 sensory histidine kinase UhpB; Provisional; Region: PRK11644 469008011152 MASE1; Region: MASE1; pfam05231 469008011153 Histidine kinase; Region: HisKA_3; pfam07730 469008011154 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 469008011155 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 469008011156 active site 469008011157 phosphorylation site [posttranslational modification] 469008011158 intermolecular recognition site; other site 469008011159 dimerization interface [polypeptide binding]; other site 469008011160 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 469008011161 DNA binding residues [nucleotide binding] 469008011162 dimerization interface [polypeptide binding]; other site 469008011163 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 469008011164 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 469008011165 putative valine binding site [chemical binding]; other site 469008011166 dimer interface [polypeptide binding]; other site 469008011167 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 469008011168 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008011169 PYR/PP interface [polypeptide binding]; other site 469008011170 dimer interface [polypeptide binding]; other site 469008011171 TPP binding site [chemical binding]; other site 469008011172 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008011173 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 469008011174 TPP-binding site [chemical binding]; other site 469008011175 dimer interface [polypeptide binding]; other site 469008011176 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 469008011177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011178 putative substrate translocation pore; other site 469008011179 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008011180 Domain of unknown function (DUF202); Region: DUF202; pfam02656 469008011181 Predicted membrane protein [Function unknown]; Region: COG2149 469008011182 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008011183 Sulfatase; Region: Sulfatase; pfam00884 469008011184 putative transporter; Provisional; Region: PRK10484 469008011185 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 469008011186 Na binding site [ion binding]; other site 469008011187 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008011188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011189 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008011190 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 469008011191 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 469008011192 NAD binding site [chemical binding]; other site 469008011193 sugar binding site [chemical binding]; other site 469008011194 divalent metal binding site [ion binding]; other site 469008011195 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008011196 dimer interface [polypeptide binding]; other site 469008011197 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 469008011198 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008011199 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 469008011200 active site turn [active] 469008011201 phosphorylation site [posttranslational modification] 469008011202 putative transporter; Validated; Region: PRK03818 469008011203 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469008011204 TrkA-C domain; Region: TrkA_C; pfam02080 469008011205 TrkA-C domain; Region: TrkA_C; pfam02080 469008011206 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 469008011207 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 469008011208 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 469008011209 putative dimer interface [polypeptide binding]; other site 469008011210 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 469008011211 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 469008011212 putative dimer interface [polypeptide binding]; other site 469008011213 hypothetical protein; Provisional; Region: PRK11616 469008011214 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 469008011215 putative oxidoreductase; Provisional; Region: PRK11445 469008011216 hypothetical protein; Provisional; Region: PRK07236 469008011217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011218 D-galactonate transporter; Region: 2A0114; TIGR00893 469008011219 putative substrate translocation pore; other site 469008011220 galactonate dehydratase; Provisional; Region: PRK14017 469008011221 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 469008011222 putative active site pocket [active] 469008011223 putative metal binding site [ion binding]; other site 469008011224 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 469008011225 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008011226 active site 469008011227 intersubunit interface [polypeptide binding]; other site 469008011228 catalytic residue [active] 469008011229 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 469008011230 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 469008011231 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008011232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011233 DNA-binding site [nucleotide binding]; DNA binding site 469008011234 FCD domain; Region: FCD; pfam07729 469008011235 hypothetical protein; Provisional; Region: PRK10215 469008011236 sugar phosphate phosphatase; Provisional; Region: PRK10513 469008011237 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 469008011238 active site 469008011239 motif I; other site 469008011240 motif II; other site 469008011241 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 469008011242 hypothetical protein; Provisional; Region: PRK11426 469008011243 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 469008011244 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 469008011245 Mg2+ binding site [ion binding]; other site 469008011246 G-X-G motif; other site 469008011247 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 469008011248 anchoring element; other site 469008011249 dimer interface [polypeptide binding]; other site 469008011250 ATP binding site [chemical binding]; other site 469008011251 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 469008011252 active site 469008011253 putative metal-binding site [ion binding]; other site 469008011254 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469008011255 recF protein; Region: recf; TIGR00611 469008011256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008011257 Walker A/P-loop; other site 469008011258 ATP binding site [chemical binding]; other site 469008011259 Q-loop/lid; other site 469008011260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008011261 ABC transporter signature motif; other site 469008011262 Walker B; other site 469008011263 D-loop; other site 469008011264 H-loop/switch region; other site 469008011265 DNA polymerase III subunit beta; Validated; Region: PRK05643 469008011266 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 469008011267 putative DNA binding surface [nucleotide binding]; other site 469008011268 dimer interface [polypeptide binding]; other site 469008011269 beta-clamp/clamp loader binding surface; other site 469008011270 beta-clamp/translesion DNA polymerase binding surface; other site 469008011271 DnaA N-terminal domain; Region: DnaA_N; pfam11638 469008011272 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 469008011273 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 469008011274 Walker A motif; other site 469008011275 ATP binding site [chemical binding]; other site 469008011276 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 469008011277 Walker B motif; other site 469008011278 arginine finger; other site 469008011279 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 469008011280 DnaA box-binding interface [nucleotide binding]; other site 469008011281 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 469008011282 ribonuclease P; Reviewed; Region: rnpA; PRK01732 469008011283 hypothetical protein; Validated; Region: PRK00041 469008011284 membrane protein insertase; Provisional; Region: PRK01318 469008011285 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 469008011286 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 469008011287 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 469008011288 trmE is a tRNA modification GTPase; Region: trmE; cd04164 469008011289 G1 box; other site 469008011290 GTP/Mg2+ binding site [chemical binding]; other site 469008011291 Switch I region; other site 469008011292 G2 box; other site 469008011293 Switch II region; other site 469008011294 G3 box; other site 469008011295 G4 box; other site 469008011296 G5 box; other site 469008011297 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 469008011298 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 469008011299 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 469008011300 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 469008011301 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008011302 catalytic residue [active] 469008011303 tryptophan permease TnaB; Provisional; Region: PRK09664 469008011304 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008011305 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 469008011306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011307 putative substrate translocation pore; other site 469008011308 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 469008011309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011310 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 469008011311 substrate binding pocket [chemical binding]; other site 469008011312 dimerization interface [polypeptide binding]; other site 469008011313 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 469008011314 Predicted flavoprotein [General function prediction only]; Region: COG0431 469008011315 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008011316 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008011317 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 469008011318 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 469008011319 active site 469008011320 motif I; other site 469008011321 motif II; other site 469008011322 putative inner membrane protein; Provisional; Region: PRK09823 469008011323 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 469008011324 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008011325 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 469008011326 active site 469008011327 trimer interface [polypeptide binding]; other site 469008011328 allosteric site; other site 469008011329 active site lid [active] 469008011330 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 469008011331 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 469008011332 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 469008011333 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 469008011334 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 469008011335 trimer interface; other site 469008011336 sugar binding site [chemical binding]; other site 469008011337 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 469008011338 beta-galactosidase; Region: BGL; TIGR03356 469008011339 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 469008011340 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 469008011341 active site turn [active] 469008011342 phosphorylation site [posttranslational modification] 469008011343 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008011344 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 469008011345 HPr interaction site; other site 469008011346 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008011347 active site 469008011348 phosphorylation site [posttranslational modification] 469008011349 transcriptional antiterminator BglG; Provisional; Region: PRK09772 469008011350 CAT RNA binding domain; Region: CAT_RBD; pfam03123 469008011351 PRD domain; Region: PRD; pfam00874 469008011352 PRD domain; Region: PRD; pfam00874 469008011353 transcriptional regulator PhoU; Provisional; Region: PRK11115 469008011354 PhoU domain; Region: PhoU; pfam01895 469008011355 PhoU domain; Region: PhoU; pfam01895 469008011356 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 469008011357 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 469008011358 Walker A/P-loop; other site 469008011359 ATP binding site [chemical binding]; other site 469008011360 Q-loop/lid; other site 469008011361 ABC transporter signature motif; other site 469008011362 Walker B; other site 469008011363 D-loop; other site 469008011364 H-loop/switch region; other site 469008011365 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 469008011366 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 469008011367 dimer interface [polypeptide binding]; other site 469008011368 conserved gate region; other site 469008011369 putative PBP binding loops; other site 469008011370 ABC-ATPase subunit interface; other site 469008011371 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 469008011372 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 469008011373 dimer interface [polypeptide binding]; other site 469008011374 conserved gate region; other site 469008011375 putative PBP binding loops; other site 469008011376 ABC-ATPase subunit interface; other site 469008011377 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 469008011378 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 469008011379 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 469008011380 glutaminase active site [active] 469008011381 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 469008011382 dimer interface [polypeptide binding]; other site 469008011383 active site 469008011384 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 469008011385 dimer interface [polypeptide binding]; other site 469008011386 active site 469008011387 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 469008011388 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 469008011389 Substrate binding site; other site 469008011390 Mg++ binding site; other site 469008011391 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 469008011392 active site 469008011393 substrate binding site [chemical binding]; other site 469008011394 CoA binding site [chemical binding]; other site 469008011395 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 469008011396 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 469008011397 gamma subunit interface [polypeptide binding]; other site 469008011398 epsilon subunit interface [polypeptide binding]; other site 469008011399 LBP interface [polypeptide binding]; other site 469008011400 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 469008011401 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469008011402 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 469008011403 alpha subunit interaction interface [polypeptide binding]; other site 469008011404 Walker A motif; other site 469008011405 ATP binding site [chemical binding]; other site 469008011406 Walker B motif; other site 469008011407 inhibitor binding site; inhibition site 469008011408 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469008011409 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 469008011410 core domain interface [polypeptide binding]; other site 469008011411 delta subunit interface [polypeptide binding]; other site 469008011412 epsilon subunit interface [polypeptide binding]; other site 469008011413 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 469008011414 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469008011415 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 469008011416 beta subunit interaction interface [polypeptide binding]; other site 469008011417 Walker A motif; other site 469008011418 ATP binding site [chemical binding]; other site 469008011419 Walker B motif; other site 469008011420 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469008011421 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 469008011422 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 469008011423 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 469008011424 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 469008011425 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 469008011426 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 469008011427 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 469008011428 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 469008011429 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 469008011430 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 469008011431 S-adenosylmethionine binding site [chemical binding]; other site 469008011432 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 469008011433 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 469008011434 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469008011435 FMN-binding protein MioC; Provisional; Region: PRK09004 469008011436 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 469008011437 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 469008011438 putative DNA binding site [nucleotide binding]; other site 469008011439 putative Zn2+ binding site [ion binding]; other site 469008011440 AsnC family; Region: AsnC_trans_reg; pfam01037 469008011441 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 469008011442 dimer interface [polypeptide binding]; other site 469008011443 active site 469008011444 hypothetical protein; Provisional; Region: yieM; PRK10997 469008011445 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 469008011446 metal ion-dependent adhesion site (MIDAS); other site 469008011447 regulatory ATPase RavA; Provisional; Region: PRK13531 469008011448 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 469008011449 Walker A motif; other site 469008011450 ATP binding site [chemical binding]; other site 469008011451 Walker B motif; other site 469008011452 arginine finger; other site 469008011453 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 469008011454 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 469008011455 potassium uptake protein; Region: kup; TIGR00794 469008011456 putative transposase OrfB; Reviewed; Region: PHA02517 469008011457 HTH-like domain; Region: HTH_21; pfam13276 469008011458 Integrase core domain; Region: rve; pfam00665 469008011459 Integrase core domain; Region: rve_2; pfam13333 469008011460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011461 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011462 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011463 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 469008011464 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008011465 Walker A/P-loop; other site 469008011466 ATP binding site [chemical binding]; other site 469008011467 Q-loop/lid; other site 469008011468 ABC transporter signature motif; other site 469008011469 Walker B; other site 469008011470 D-loop; other site 469008011471 H-loop/switch region; other site 469008011472 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008011473 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008011474 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 469008011475 TM-ABC transporter signature motif; other site 469008011476 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 469008011477 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 469008011478 ligand binding site [chemical binding]; other site 469008011479 dimerization interface [polypeptide binding]; other site 469008011480 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 469008011481 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008011482 substrate binding site [chemical binding]; other site 469008011483 dimer interface [polypeptide binding]; other site 469008011484 ATP binding site [chemical binding]; other site 469008011485 transcriptional repressor RbsR; Provisional; Region: PRK10423 469008011486 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008011487 DNA binding site [nucleotide binding] 469008011488 domain linker motif; other site 469008011489 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 469008011490 dimerization interface [polypeptide binding]; other site 469008011491 ligand binding site [chemical binding]; other site 469008011492 putative transporter; Provisional; Region: PRK10504 469008011493 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011494 putative substrate translocation pore; other site 469008011495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011496 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008011497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011498 DNA-binding site [nucleotide binding]; DNA binding site 469008011499 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008011500 transcriptional regulator HdfR; Provisional; Region: PRK03601 469008011501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011502 LysR substrate binding domain; Region: LysR_substrate; pfam03466 469008011503 dimerization interface [polypeptide binding]; other site 469008011504 hypothetical protein; Provisional; Region: PRK11027 469008011505 putative ATP-dependent protease; Provisional; Region: PRK09862 469008011506 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469008011507 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 469008011508 Walker A motif; other site 469008011509 ATP binding site [chemical binding]; other site 469008011510 Walker B motif; other site 469008011511 arginine finger; other site 469008011512 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 469008011513 ilvG operon leader peptide; Provisional; Region: PRK10424 469008011514 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 469008011515 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008011516 PYR/PP interface [polypeptide binding]; other site 469008011517 dimer interface [polypeptide binding]; other site 469008011518 TPP binding site [chemical binding]; other site 469008011519 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008011520 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 469008011521 TPP-binding site [chemical binding]; other site 469008011522 dimer interface [polypeptide binding]; other site 469008011523 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 469008011524 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469008011525 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 469008011526 homodimer interface [polypeptide binding]; other site 469008011527 substrate-cofactor binding pocket; other site 469008011528 catalytic residue [active] 469008011529 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 469008011530 threonine dehydratase; Reviewed; Region: PRK09224 469008011531 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 469008011532 tetramer interface [polypeptide binding]; other site 469008011533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008011534 catalytic residue [active] 469008011535 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 469008011536 putative Ile/Val binding site [chemical binding]; other site 469008011537 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 469008011538 putative Ile/Val binding site [chemical binding]; other site 469008011539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011540 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 469008011541 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 469008011542 putative dimerization interface [polypeptide binding]; other site 469008011543 ketol-acid reductoisomerase; Validated; Region: PRK05225 469008011544 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 469008011545 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 469008011546 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 469008011547 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 469008011548 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 469008011549 PemK-like protein; Region: PemK; cl00995 469008011550 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 469008011551 Part of AAA domain; Region: AAA_19; pfam13245 469008011552 Family description; Region: UvrD_C_2; pfam13538 469008011553 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 469008011554 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469008011555 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 469008011556 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 469008011557 ATP binding site [chemical binding]; other site 469008011558 Mg++ binding site [ion binding]; other site 469008011559 motif III; other site 469008011560 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 469008011561 nucleotide binding region [chemical binding]; other site 469008011562 ATP-binding site [chemical binding]; other site 469008011563 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 469008011564 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469008011565 catalytic residues [active] 469008011566 putative rho operon leader peptide; Provisional; Region: PRK09979 469008011567 transcription termination factor Rho; Provisional; Region: rho; PRK09376 469008011568 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 469008011569 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 469008011570 RNA binding site [nucleotide binding]; other site 469008011571 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 469008011572 multimer interface [polypeptide binding]; other site 469008011573 Walker A motif; other site 469008011574 ATP binding site [chemical binding]; other site 469008011575 Walker B motif; other site 469008011576 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 469008011577 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 469008011578 Mg++ binding site [ion binding]; other site 469008011579 putative catalytic motif [active] 469008011580 substrate binding site [chemical binding]; other site 469008011581 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 469008011582 Chain length determinant protein; Region: Wzz; pfam02706 469008011583 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 469008011584 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 469008011585 active site 469008011586 homodimer interface [polypeptide binding]; other site 469008011587 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 469008011588 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 469008011589 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 469008011590 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 469008011591 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 469008011592 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469008011593 NAD binding site [chemical binding]; other site 469008011594 substrate binding site [chemical binding]; other site 469008011595 homodimer interface [polypeptide binding]; other site 469008011596 active site 469008011597 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 469008011598 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 469008011599 substrate binding site; other site 469008011600 tetramer interface; other site 469008011601 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 469008011602 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008011603 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 469008011604 inhibitor-cofactor binding pocket; inhibition site 469008011605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008011606 catalytic residue [active] 469008011607 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469008011608 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 469008011609 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 469008011610 putative common antigen polymerase; Provisional; Region: PRK02975 469008011611 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 469008011612 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 469008011613 putative transport protein YifK; Provisional; Region: PRK10746 469008011614 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008011615 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 469008011616 FeS/SAM binding site; other site 469008011617 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 469008011618 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008011619 Sulfatase; Region: Sulfatase; pfam00884 469008011620 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 469008011621 HemY protein N-terminus; Region: HemY_N; pfam07219 469008011622 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 469008011623 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 469008011624 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 469008011625 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 469008011626 active site 469008011627 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 469008011628 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 469008011629 domain interfaces; other site 469008011630 active site 469008011631 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 469008011632 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 469008011633 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 469008011634 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 469008011635 putative iron binding site [ion binding]; other site 469008011636 hypothetical protein; Provisional; Region: PRK09807 469008011637 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 469008011638 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 469008011639 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 469008011640 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 469008011641 hypothetical protein; Provisional; Region: PRK10963 469008011642 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 469008011643 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 469008011644 active site 469008011645 DNA binding site [nucleotide binding] 469008011646 Int/Topo IB signature motif; other site 469008011647 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 469008011648 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 469008011649 motif II; other site 469008011650 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 469008011651 Part of AAA domain; Region: AAA_19; pfam13245 469008011652 Family description; Region: UvrD_C_2; pfam13538 469008011653 Uncharacterized conserved protein [Function unknown]; Region: COG1912 469008011654 Predicted periplasmic protein [Function unknown]; Region: COG3698 469008011655 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 469008011656 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469008011657 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 469008011658 Cl binding site [ion binding]; other site 469008011659 oligomer interface [polypeptide binding]; other site 469008011660 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 469008011661 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 469008011662 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085 469008011663 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469008011664 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 469008011665 hypothetical protein; Provisional; Region: PRK11371 469008011666 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 469008011667 EamA-like transporter family; Region: EamA; cl17759 469008011668 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 469008011669 CoenzymeA binding site [chemical binding]; other site 469008011670 subunit interaction site [polypeptide binding]; other site 469008011671 PHB binding site; other site 469008011672 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 469008011673 dimerization interface [polypeptide binding]; other site 469008011674 substrate binding site [chemical binding]; other site 469008011675 active site 469008011676 calcium binding site [ion binding]; other site 469008011677 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 469008011678 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 469008011679 ATP binding site [chemical binding]; other site 469008011680 putative Mg++ binding site [ion binding]; other site 469008011681 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 469008011682 nucleotide binding region [chemical binding]; other site 469008011683 ATP-binding site [chemical binding]; other site 469008011684 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 469008011685 Helicase and RNase D C-terminal; Region: HRDC; smart00341 469008011686 threonine efflux system; Provisional; Region: PRK10229 469008011687 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 469008011688 lysophospholipase L2; Provisional; Region: PRK10749 469008011689 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469008011690 putative hydrolase; Provisional; Region: PRK10976 469008011691 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 469008011692 active site 469008011693 motif I; other site 469008011694 motif II; other site 469008011695 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 469008011696 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008011697 EamA-like transporter family; Region: EamA; pfam00892 469008011698 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 469008011699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011700 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 469008011701 putative dimerization interface [polypeptide binding]; other site 469008011702 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 469008011703 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 469008011704 THF binding site; other site 469008011705 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 469008011706 substrate binding site [chemical binding]; other site 469008011707 THF binding site; other site 469008011708 zinc-binding site [ion binding]; other site 469008011709 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008011710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011711 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 469008011712 dimerization interface [polypeptide binding]; other site 469008011713 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 469008011714 Na binding site [ion binding]; other site 469008011715 allophanate hydrolase; Provisional; Region: PRK08186 469008011716 carbamate kinase; Reviewed; Region: PRK12686 469008011717 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 469008011718 putative substrate binding site [chemical binding]; other site 469008011719 nucleotide binding site [chemical binding]; other site 469008011720 nucleotide binding site [chemical binding]; other site 469008011721 homodimer interface [polypeptide binding]; other site 469008011722 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008011723 membrane protein FdrA; Validated; Region: PRK06091 469008011724 CoA binding domain; Region: CoA_binding; pfam02629 469008011725 CoA-ligase; Region: Ligase_CoA; pfam00549 469008011726 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008011727 Isochorismatase family; Region: Isochorismatase; pfam00857 469008011728 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 469008011729 catalytic triad [active] 469008011730 conserved cis-peptide bond; other site 469008011731 Dienelactone hydrolase family; Region: DLH; pfam01738 469008011732 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 469008011733 uridine phosphorylase; Provisional; Region: PRK11178 469008011734 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 469008011735 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 469008011736 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 469008011737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 469008011738 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 469008011739 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008011740 active site 469008011741 intersubunit interface [polypeptide binding]; other site 469008011742 catalytic residue [active] 469008011743 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 469008011744 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 469008011745 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008011746 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008011747 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008011748 DNA recombination protein RmuC; Provisional; Region: PRK10361 469008011749 RmuC family; Region: RmuC; pfam02646 469008011750 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 469008011751 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 469008011752 S-adenosylmethionine binding site [chemical binding]; other site 469008011753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 469008011754 SCP-2 sterol transfer family; Region: SCP2; pfam02036 469008011755 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 469008011756 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 469008011757 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 469008011758 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 469008011759 sec-independent translocase; Provisional; Region: PRK01770 469008011760 sec-independent translocase; Provisional; Region: tatB; PRK00404 469008011761 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 469008011762 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008011763 active site 469008011764 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 469008011765 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 469008011766 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 469008011767 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 469008011768 FMN reductase; Validated; Region: fre; PRK08051 469008011769 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 469008011770 FAD binding pocket [chemical binding]; other site 469008011771 FAD binding motif [chemical binding]; other site 469008011772 phosphate binding motif [ion binding]; other site 469008011773 beta-alpha-beta structure motif; other site 469008011774 NAD binding pocket [chemical binding]; other site 469008011775 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 469008011776 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 469008011777 dimer interface [polypeptide binding]; other site 469008011778 active site 469008011779 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 469008011780 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 469008011781 substrate binding site [chemical binding]; other site 469008011782 oxyanion hole (OAH) forming residues; other site 469008011783 trimer interface [polypeptide binding]; other site 469008011784 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469008011785 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008011786 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008011787 proline dipeptidase; Provisional; Region: PRK13607 469008011788 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 469008011789 active site 469008011790 hypothetical protein; Provisional; Region: PRK11568 469008011791 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 469008011792 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 469008011793 potassium transporter; Provisional; Region: PRK10750 469008011794 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469008011795 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 469008011796 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 469008011797 Walker A motif; other site 469008011798 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 469008011799 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 469008011800 GTP binding site; other site 469008011801 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 469008011802 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 469008011803 serine/threonine protein kinase; Provisional; Region: PRK11768 469008011804 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 469008011805 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 469008011806 catalytic residues [active] 469008011807 hinge region; other site 469008011808 alpha helical domain; other site 469008011809 hypothetical protein; Provisional; Region: PRK11367 469008011810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 469008011811 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469008011812 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 469008011813 putative acyl-acceptor binding pocket; other site 469008011814 DNA polymerase I; Provisional; Region: PRK05755 469008011815 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469008011816 active site 469008011817 metal binding site 1 [ion binding]; metal-binding site 469008011818 putative 5' ssDNA interaction site; other site 469008011819 metal binding site 3; metal-binding site 469008011820 metal binding site 2 [ion binding]; metal-binding site 469008011821 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469008011822 putative DNA binding site [nucleotide binding]; other site 469008011823 putative metal binding site [ion binding]; other site 469008011824 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 469008011825 active site 469008011826 catalytic site [active] 469008011827 substrate binding site [chemical binding]; other site 469008011828 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 469008011829 active site 469008011830 DNA binding site [nucleotide binding] 469008011831 catalytic site [active] 469008011832 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 469008011833 G1 box; other site 469008011834 GTP/Mg2+ binding site [chemical binding]; other site 469008011835 Switch I region; other site 469008011836 G2 box; other site 469008011837 G3 box; other site 469008011838 Switch II region; other site 469008011839 G4 box; other site 469008011840 G5 box; other site 469008011841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 469008011842 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 469008011843 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 469008011844 FeS/SAM binding site; other site 469008011845 HemN C-terminal domain; Region: HemN_C; pfam06969 469008011846 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 469008011847 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 469008011848 active site 469008011849 phosphorylation site [posttranslational modification] 469008011850 intermolecular recognition site; other site 469008011851 dimerization interface [polypeptide binding]; other site 469008011852 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 469008011853 Walker A motif; other site 469008011854 ATP binding site [chemical binding]; other site 469008011855 Walker B motif; other site 469008011856 arginine finger; other site 469008011857 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008011858 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 469008011859 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 469008011860 putative active site [active] 469008011861 heme pocket [chemical binding]; other site 469008011862 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 469008011863 dimer interface [polypeptide binding]; other site 469008011864 phosphorylation site [posttranslational modification] 469008011865 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 469008011866 ATP binding site [chemical binding]; other site 469008011867 Mg2+ binding site [ion binding]; other site 469008011868 G-X-G motif; other site 469008011869 glutamine synthetase; Provisional; Region: glnA; PRK09469 469008011870 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 469008011871 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469008011872 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 469008011873 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 469008011874 G1 box; other site 469008011875 putative GEF interaction site [polypeptide binding]; other site 469008011876 GTP/Mg2+ binding site [chemical binding]; other site 469008011877 Switch I region; other site 469008011878 G2 box; other site 469008011879 G3 box; other site 469008011880 Switch II region; other site 469008011881 G4 box; other site 469008011882 G5 box; other site 469008011883 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 469008011884 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 469008011885 transcriptional regulator protein; Region: phnR; TIGR03337 469008011886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011887 DNA-binding site [nucleotide binding]; DNA binding site 469008011888 UTRA domain; Region: UTRA; pfam07702 469008011889 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469008011890 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011891 putative substrate translocation pore; other site 469008011892 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 469008011893 outer membrane porin L; Provisional; Region: ompL; PRK09980 469008011894 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008011895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011896 putative substrate translocation pore; other site 469008011897 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008011898 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008011899 alpha-glucosidase; Provisional; Region: PRK10426 469008011900 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008011901 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 469008011902 putative active site [active] 469008011903 putative catalytic site [active] 469008011904 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 469008011905 active site 469008011906 catalytic residues [active] 469008011907 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 469008011908 dimerization interface [polypeptide binding]; other site 469008011909 putative active cleft [active] 469008011910 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 469008011911 catalytic residue [active] 469008011912 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 469008011913 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008011914 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008011915 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 469008011916 substrate binding site [chemical binding]; other site 469008011917 ATP binding site [chemical binding]; other site 469008011918 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008011919 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 469008011920 putative DNA binding site [nucleotide binding]; other site 469008011921 putative Zn2+ binding site [ion binding]; other site 469008011922 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008011923 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 469008011924 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 469008011925 motif II; other site 469008011926 hypothetical protein; Reviewed; Region: PRK01637 469008011927 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 469008011928 putative active site [active] 469008011929 dimerization interface [polypeptide binding]; other site 469008011930 putative tRNAtyr binding site [nucleotide binding]; other site 469008011931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008011932 Coenzyme A binding pocket [chemical binding]; other site 469008011933 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 469008011934 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 469008011935 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 469008011936 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 469008011937 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 469008011938 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008011939 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 469008011940 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 469008011941 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 469008011942 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 469008011943 [4Fe-4S] binding site [ion binding]; other site 469008011944 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 469008011945 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 469008011946 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 469008011947 molybdopterin cofactor binding site; other site 469008011948 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 469008011949 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 469008011950 putative frv operon regulatory protein; Provisional; Region: PRK09863 469008011951 HTH domain; Region: HTH_11; pfam08279 469008011952 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 469008011953 active site 469008011954 phosphorylation site [posttranslational modification] 469008011955 putative peptidase; Provisional; Region: PRK09864 469008011956 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 469008011957 oligomer interface [polypeptide binding]; other site 469008011958 active site 469008011959 metal binding site [ion binding]; metal-binding site 469008011960 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 469008011961 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 469008011962 active site 469008011963 P-loop; other site 469008011964 phosphorylation site [posttranslational modification] 469008011965 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008011966 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 469008011967 active site 469008011968 phosphorylation site [posttranslational modification] 469008011969 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 469008011970 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 469008011971 intersubunit interface [polypeptide binding]; other site 469008011972 active site 469008011973 Zn2+ binding site [ion binding]; other site 469008011974 L-rhamnose isomerase; Provisional; Region: PRK01076 469008011975 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 469008011976 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 469008011977 N- and C-terminal domain interface [polypeptide binding]; other site 469008011978 active site 469008011979 putative catalytic site [active] 469008011980 metal binding site [ion binding]; metal-binding site 469008011981 ATP binding site [chemical binding]; other site 469008011982 rhamnulokinase; Provisional; Region: rhaB; PRK10640 469008011983 carbohydrate binding site [chemical binding]; other site 469008011984 transcriptional activator RhaS; Provisional; Region: PRK13503 469008011985 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008011986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011988 transcriptional activator RhaR; Provisional; Region: PRK13500 469008011989 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008011990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011992 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 469008011993 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 469008011994 superoxide dismutase; Provisional; Region: PRK10925 469008011995 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 469008011996 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 469008011997 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 469008011998 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 469008011999 MOSC domain; Region: MOSC; pfam03473 469008012000 3-alpha domain; Region: 3-alpha; pfam03475 469008012001 two-component sensor protein; Provisional; Region: cpxA; PRK09470 469008012002 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 469008012003 dimerization interface [polypeptide binding]; other site 469008012004 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 469008012005 dimer interface [polypeptide binding]; other site 469008012006 phosphorylation site [posttranslational modification] 469008012007 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 469008012008 ATP binding site [chemical binding]; other site 469008012009 Mg2+ binding site [ion binding]; other site 469008012010 G-X-G motif; other site 469008012011 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 469008012012 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 469008012013 active site 469008012014 intermolecular recognition site; other site 469008012015 dimerization interface [polypeptide binding]; other site 469008012016 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 469008012017 DNA binding site [nucleotide binding] 469008012018 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 469008012019 dimer interface [polypeptide binding]; other site 469008012020 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 469008012021 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 469008012022 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 469008012023 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 469008012024 active site 469008012025 ADP/pyrophosphate binding site [chemical binding]; other site 469008012026 dimerization interface [polypeptide binding]; other site 469008012027 allosteric effector site; other site 469008012028 fructose-1,6-bisphosphate binding site; other site 469008012029 sulfate transporter subunit; Provisional; Region: PRK10752 469008012030 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469008012031 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 469008012032 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 469008012033 triosephosphate isomerase; Provisional; Region: PRK14567 469008012034 substrate binding site [chemical binding]; other site 469008012035 dimer interface [polypeptide binding]; other site 469008012036 catalytic triad [active] 469008012037 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 469008012038 Predicted membrane protein [Function unknown]; Region: COG3152 469008012039 hypothetical protein; Provisional; Region: PRK09981 469008012040 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 469008012041 Ligand Binding Site [chemical binding]; other site 469008012042 ferredoxin-NADP reductase; Provisional; Region: PRK10926 469008012043 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 469008012044 FAD binding pocket [chemical binding]; other site 469008012045 FAD binding motif [chemical binding]; other site 469008012046 phosphate binding motif [ion binding]; other site 469008012047 beta-alpha-beta structure motif; other site 469008012048 NAD binding pocket [chemical binding]; other site 469008012049 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469008012050 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 469008012051 putative active site [active] 469008012052 glycerol kinase; Provisional; Region: glpK; PRK00047 469008012053 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 469008012054 N- and C-terminal domain interface [polypeptide binding]; other site 469008012055 active site 469008012056 MgATP binding site [chemical binding]; other site 469008012057 catalytic site [active] 469008012058 metal binding site [ion binding]; metal-binding site 469008012059 glycerol binding site [chemical binding]; other site 469008012060 homotetramer interface [polypeptide binding]; other site 469008012061 homodimer interface [polypeptide binding]; other site 469008012062 FBP binding site [chemical binding]; other site 469008012063 protein IIAGlc interface [polypeptide binding]; other site 469008012064 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 469008012065 amphipathic channel; other site 469008012066 Asn-Pro-Ala signature motifs; other site 469008012067 septal ring assembly protein ZapB; Provisional; Region: PRK15422 469008012068 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 469008012069 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 469008012070 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008012071 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 469008012072 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 469008012073 Walker A motif; other site 469008012074 ATP binding site [chemical binding]; other site 469008012075 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 469008012076 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469008012077 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 469008012078 active site 469008012079 HslU subunit interaction site [polypeptide binding]; other site 469008012080 essential cell division protein FtsN; Provisional; Region: PRK10927 469008012081 cell division protein FtsN; Provisional; Region: PRK12757 469008012082 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008012083 DNA binding site [nucleotide binding] 469008012084 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 469008012085 domain linker motif; other site 469008012086 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 469008012087 dimerization interface [polypeptide binding]; other site 469008012088 ligand binding site [chemical binding]; other site 469008012089 primosome assembly protein PriA; Validated; Region: PRK05580 469008012090 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 469008012091 ATP binding site [chemical binding]; other site 469008012092 putative Mg++ binding site [ion binding]; other site 469008012093 helicase superfamily c-terminal domain; Region: HELICc; smart00490 469008012094 ATP-binding site [chemical binding]; other site 469008012095 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 469008012096 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 469008012097 hypothetical protein; Provisional; Region: PRK10030 469008012098 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 469008012099 dimerization interface [polypeptide binding]; other site 469008012100 DNA binding site [nucleotide binding] 469008012101 corepressor binding sites; other site 469008012102 cystathionine gamma-synthase; Provisional; Region: PRK08045 469008012103 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 469008012104 homodimer interface [polypeptide binding]; other site 469008012105 substrate-cofactor binding pocket; other site 469008012106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012107 catalytic residue [active] 469008012108 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 469008012109 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 469008012110 putative catalytic residues [active] 469008012111 putative nucleotide binding site [chemical binding]; other site 469008012112 putative aspartate binding site [chemical binding]; other site 469008012113 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 469008012114 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 469008012115 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 469008012116 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 469008012117 FAD binding site [chemical binding]; other site 469008012118 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 469008012119 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 469008012120 heme binding site [chemical binding]; other site 469008012121 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 469008012122 EamA-like transporter family; Region: EamA; pfam00892 469008012123 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008012124 EamA-like transporter family; Region: EamA; pfam00892 469008012125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 469008012126 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 469008012127 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 469008012128 dimer interface [polypeptide binding]; other site 469008012129 active site 469008012130 metal binding site [ion binding]; metal-binding site 469008012131 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 469008012132 active site 469008012133 intersubunit interactions; other site 469008012134 catalytic residue [active] 469008012135 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 469008012136 dimerization domain swap beta strand [polypeptide binding]; other site 469008012137 regulatory protein interface [polypeptide binding]; other site 469008012138 active site 469008012139 regulatory phosphorylation site [posttranslational modification]; other site 469008012140 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008012141 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469008012142 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008012143 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008012144 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 469008012145 active site 469008012146 phosphorylation site [posttranslational modification] 469008012147 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 469008012148 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 469008012149 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 469008012150 active site 469008012151 P-loop; other site 469008012152 phosphorylation site [posttranslational modification] 469008012153 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 469008012154 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 469008012155 dimer interface [polypeptide binding]; other site 469008012156 active site 469008012157 glycine loop; other site 469008012158 pyruvate formate lyase II activase; Provisional; Region: PRK10076 469008012159 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 469008012160 active site 469008012161 P-loop; other site 469008012162 phosphorylation site [posttranslational modification] 469008012163 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008012164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012165 hypothetical protein; Provisional; Region: PRK10649 469008012166 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008012167 Sulfatase; Region: Sulfatase; pfam00884 469008012168 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 469008012169 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 469008012170 acetylornithine deacetylase; Provisional; Region: PRK05111 469008012171 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 469008012172 metal binding site [ion binding]; metal-binding site 469008012173 putative dimer interface [polypeptide binding]; other site 469008012174 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 469008012175 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008012176 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 469008012177 nucleotide binding site [chemical binding]; other site 469008012178 N-acetyl-L-glutamate binding site [chemical binding]; other site 469008012179 argininosuccinate lyase; Provisional; Region: PRK04833 469008012180 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 469008012181 active sites [active] 469008012182 tetramer interface [polypeptide binding]; other site 469008012183 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 469008012184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008012185 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 469008012186 dimerization interface [polypeptide binding]; other site 469008012187 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 469008012188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008012189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008012190 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 469008012191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008012192 hypothetical protein; Provisional; Region: PRK11056 469008012193 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 469008012194 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 469008012195 S-adenosylmethionine binding site [chemical binding]; other site 469008012196 glutamate racemase; Provisional; Region: PRK00865 469008012197 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 469008012198 FAD binding domain; Region: FAD_binding_4; pfam01565 469008012199 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 469008012200 Biotin operon repressor [Transcription]; Region: BirA; COG1654 469008012201 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 469008012202 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 469008012203 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 469008012204 pantothenate kinase; Provisional; Region: PRK05439 469008012205 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 469008012206 ATP-binding site [chemical binding]; other site 469008012207 CoA-binding site [chemical binding]; other site 469008012208 Mg2+-binding site [ion binding]; other site 469008012209 elongation factor Tu; Reviewed; Region: PRK00049 469008012210 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469008012211 G1 box; other site 469008012212 GEF interaction site [polypeptide binding]; other site 469008012213 GTP/Mg2+ binding site [chemical binding]; other site 469008012214 Switch I region; other site 469008012215 G2 box; other site 469008012216 G3 box; other site 469008012217 Switch II region; other site 469008012218 G4 box; other site 469008012219 G5 box; other site 469008012220 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 469008012221 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 469008012222 Antibiotic Binding Site [chemical binding]; other site 469008012223 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 469008012224 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 469008012225 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 469008012226 putative homodimer interface [polypeptide binding]; other site 469008012227 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 469008012228 heterodimer interface [polypeptide binding]; other site 469008012229 homodimer interface [polypeptide binding]; other site 469008012230 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 469008012231 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 469008012232 23S rRNA interface [nucleotide binding]; other site 469008012233 L7/L12 interface [polypeptide binding]; other site 469008012234 putative thiostrepton binding site; other site 469008012235 L25 interface [polypeptide binding]; other site 469008012236 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 469008012237 mRNA/rRNA interface [nucleotide binding]; other site 469008012238 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 469008012239 23S rRNA interface [nucleotide binding]; other site 469008012240 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 469008012241 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 469008012242 core dimer interface [polypeptide binding]; other site 469008012243 peripheral dimer interface [polypeptide binding]; other site 469008012244 L10 interface [polypeptide binding]; other site 469008012245 L11 interface [polypeptide binding]; other site 469008012246 putative EF-Tu interaction site [polypeptide binding]; other site 469008012247 putative EF-G interaction site [polypeptide binding]; other site 469008012248 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 469008012249 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 469008012250 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 469008012251 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 469008012252 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 469008012253 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 469008012254 RPB3 interaction site [polypeptide binding]; other site 469008012255 RPB1 interaction site [polypeptide binding]; other site 469008012256 RPB11 interaction site [polypeptide binding]; other site 469008012257 RPB10 interaction site [polypeptide binding]; other site 469008012258 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 469008012259 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 469008012260 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 469008012261 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 469008012262 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 469008012263 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 469008012264 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469008012265 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 469008012266 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469008012267 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 469008012268 DNA binding site [nucleotide binding] 469008012269 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 469008012270 stationary phase growth adaptation protein; Provisional; Region: PRK09717 469008012271 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 469008012272 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 469008012273 FeS/SAM binding site; other site 469008012274 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 469008012275 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 469008012276 ThiS interaction site; other site 469008012277 putative active site [active] 469008012278 tetramer interface [polypeptide binding]; other site 469008012279 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 469008012280 thiS-thiF/thiG interaction site; other site 469008012281 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 469008012282 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 469008012283 ATP binding site [chemical binding]; other site 469008012284 substrate interface [chemical binding]; other site 469008012285 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 469008012286 thiamine phosphate binding site [chemical binding]; other site 469008012287 active site 469008012288 pyrophosphate binding site [ion binding]; other site 469008012289 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 469008012290 ThiC-associated domain; Region: ThiC-associated; pfam13667 469008012291 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 469008012292 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 469008012293 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 469008012294 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 469008012295 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 469008012296 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 469008012297 putative NADH binding site [chemical binding]; other site 469008012298 putative active site [active] 469008012299 nudix motif; other site 469008012300 putative metal binding site [ion binding]; other site 469008012301 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 469008012302 substrate binding site [chemical binding]; other site 469008012303 active site 469008012304 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 469008012305 Active_site [active] 469008012306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 469008012307 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 469008012308 IHF dimer interface [polypeptide binding]; other site 469008012309 IHF - DNA interface [nucleotide binding]; other site 469008012310 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 469008012311 zinc resistance protein; Provisional; Region: zraP; PRK11546 469008012312 dimer interface [polypeptide binding]; other site 469008012313 sensor protein ZraS; Provisional; Region: PRK10364 469008012314 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 469008012315 dimer interface [polypeptide binding]; other site 469008012316 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 469008012317 ATP binding site [chemical binding]; other site 469008012318 Mg2+ binding site [ion binding]; other site 469008012319 G-X-G motif; other site 469008012320 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 469008012321 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 469008012322 active site 469008012323 phosphorylation site [posttranslational modification] 469008012324 intermolecular recognition site; other site 469008012325 dimerization interface [polypeptide binding]; other site 469008012326 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 469008012327 Walker A motif; other site 469008012328 ATP binding site [chemical binding]; other site 469008012329 Walker B motif; other site 469008012330 arginine finger; other site 469008012331 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008012332 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 469008012333 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 469008012334 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 469008012335 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 469008012336 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 469008012337 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 469008012338 purine monophosphate binding site [chemical binding]; other site 469008012339 dimer interface [polypeptide binding]; other site 469008012340 putative catalytic residues [active] 469008012341 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 469008012342 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008012343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008012344 Coenzyme A binding pocket [chemical binding]; other site 469008012345 homoserine O-succinyltransferase; Provisional; Region: PRK05368 469008012346 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 469008012347 proposed active site lysine [active] 469008012348 conserved cys residue [active] 469008012349 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 469008012350 malate synthase A; Region: malate_syn_A; TIGR01344 469008012351 active site 469008012352 isocitrate lyase; Provisional; Region: PRK15063 469008012353 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 469008012354 tetramer interface [polypeptide binding]; other site 469008012355 active site 469008012356 Mg2+/Mn2+ binding site [ion binding]; other site 469008012357 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 469008012358 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 469008012359 transcriptional repressor IclR; Provisional; Region: PRK11569 469008012360 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008012361 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008012362 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 469008012363 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 469008012364 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 469008012365 substrate binding pocket [chemical binding]; other site 469008012366 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 469008012367 B12 binding site [chemical binding]; other site 469008012368 cobalt ligand [ion binding]; other site 469008012369 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 469008012370 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 469008012371 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469008012372 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469008012373 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 469008012374 active site pocket [active] 469008012375 oxyanion hole [active] 469008012376 catalytic triad [active] 469008012377 active site nucleophile [active] 469008012378 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 469008012379 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 469008012380 RNA binding surface [nucleotide binding]; other site 469008012381 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 469008012382 probable active site [active] 469008012383 hypothetical protein; Provisional; Region: PRK10515 469008012384 aspartate kinase III; Validated; Region: PRK09084 469008012385 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 469008012386 nucleotide binding site [chemical binding]; other site 469008012387 putative catalytic residues [active] 469008012388 aspartate binding site [chemical binding]; other site 469008012389 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 469008012390 lysine allosteric regulatory site; other site 469008012391 dimer interface [polypeptide binding]; other site 469008012392 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 469008012393 dimer interface [polypeptide binding]; other site 469008012394 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 469008012395 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 469008012396 active site 469008012397 dimer interface [polypeptide binding]; other site 469008012398 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 469008012399 dimer interface [polypeptide binding]; other site 469008012400 active site 469008012401 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 469008012402 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 469008012403 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 469008012404 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 469008012405 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 469008012406 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012407 putative substrate translocation pore; other site 469008012408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012409 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008012410 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 469008012411 dimer interface [polypeptide binding]; other site 469008012412 conserved gate region; other site 469008012413 putative PBP binding loops; other site 469008012414 ABC-ATPase subunit interface; other site 469008012415 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 469008012416 dimer interface [polypeptide binding]; other site 469008012417 conserved gate region; other site 469008012418 putative PBP binding loops; other site 469008012419 ABC-ATPase subunit interface; other site 469008012420 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 469008012421 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 469008012422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 469008012423 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 469008012424 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008012425 Walker A/P-loop; other site 469008012426 ATP binding site [chemical binding]; other site 469008012427 Q-loop/lid; other site 469008012428 ABC transporter signature motif; other site 469008012429 Walker B; other site 469008012430 D-loop; other site 469008012431 H-loop/switch region; other site 469008012432 TOBE domain; Region: TOBE_2; pfam08402 469008012433 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 469008012434 trimer interface; other site 469008012435 sugar binding site [chemical binding]; other site 469008012436 maltose regulon periplasmic protein; Provisional; Region: PRK10564 469008012437 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 469008012438 SopA-like central domain; Region: SopA; pfam13981 469008012439 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 469008012440 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 469008012441 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008012442 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 469008012443 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 469008012444 putative acyl-acceptor binding pocket; other site 469008012445 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 469008012446 LexA repressor; Validated; Region: PRK00215 469008012447 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 469008012448 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 469008012449 Catalytic site [active] 469008012450 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 469008012451 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 469008012452 hypothetical protein; Provisional; Region: PRK10428 469008012453 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469008012454 metal binding site 2 [ion binding]; metal-binding site 469008012455 putative DNA binding helix; other site 469008012456 metal binding site 1 [ion binding]; metal-binding site 469008012457 dimer interface [polypeptide binding]; other site 469008012458 structural Zn2+ binding site [ion binding]; other site 469008012459 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 469008012460 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 469008012461 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 469008012462 FMN binding site [chemical binding]; other site 469008012463 active site 469008012464 catalytic residues [active] 469008012465 substrate binding site [chemical binding]; other site 469008012466 phage shock protein G; Reviewed; Region: pspG; PRK09459 469008012467 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 469008012468 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 469008012469 NADP binding site [chemical binding]; other site 469008012470 dimer interface [polypeptide binding]; other site 469008012471 replicative DNA helicase; Provisional; Region: PRK08006 469008012472 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 469008012473 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 469008012474 Walker A motif; other site 469008012475 ATP binding site [chemical binding]; other site 469008012476 Walker B motif; other site 469008012477 DNA binding loops [nucleotide binding] 469008012478 alanine racemase; Reviewed; Region: alr; PRK00053 469008012479 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 469008012480 active site 469008012481 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008012482 substrate binding site [chemical binding]; other site 469008012483 catalytic residues [active] 469008012484 dimer interface [polypeptide binding]; other site 469008012485 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 469008012486 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 469008012487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012488 homodimer interface [polypeptide binding]; other site 469008012489 catalytic residue [active] 469008012490 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 469008012491 motif II; other site 469008012492 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 469008012493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 469008012494 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 469008012495 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469008012496 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469008012497 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 469008012498 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469008012499 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 469008012500 dimer interface [polypeptide binding]; other site 469008012501 ssDNA binding site [nucleotide binding]; other site 469008012502 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008012503 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 469008012504 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 469008012505 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008012506 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 469008012507 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 469008012508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012509 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 469008012510 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 469008012511 DNA binding residues [nucleotide binding] 469008012512 dimer interface [polypeptide binding]; other site 469008012513 [2Fe-2S] cluster binding site [ion binding]; other site 469008012514 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008012515 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 469008012516 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469008012517 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 469008012518 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 469008012519 Na binding site [ion binding]; other site 469008012520 Predicted membrane protein [Function unknown]; Region: COG3162 469008012521 acetyl-CoA synthetase; Provisional; Region: PRK00174 469008012522 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 469008012523 active site 469008012524 CoA binding site [chemical binding]; other site 469008012525 acyl-activating enzyme (AAE) consensus motif; other site 469008012526 AMP binding site [chemical binding]; other site 469008012527 acetate binding site [chemical binding]; other site 469008012528 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 469008012529 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 469008012530 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 469008012531 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 469008012532 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 469008012533 heme lyase subunit NrfE; Provisional; Region: PRK10369 469008012534 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 469008012535 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 469008012536 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 469008012537 binding surface 469008012538 TPR motif; other site 469008012539 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 469008012540 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008012541 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008012542 Sel1-like repeats; Region: SEL1; smart00671 469008012543 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 469008012544 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 469008012545 [4Fe-4S] binding site [ion binding]; other site 469008012546 molybdopterin cofactor binding site; other site 469008012547 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 469008012548 molybdopterin cofactor binding site; other site 469008012549 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 469008012550 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 469008012551 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008012552 multidrug resistance protein MdtN; Provisional; Region: PRK10476 469008012553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008012554 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008012555 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 469008012556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469008012557 D-allose kinase; Provisional; Region: PRK09698 469008012558 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008012559 nucleotide binding site [chemical binding]; other site 469008012560 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469008012561 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 469008012562 substrate binding site [chemical binding]; other site 469008012563 hexamer interface [polypeptide binding]; other site 469008012564 metal binding site [ion binding]; metal-binding site 469008012565 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008012566 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 469008012567 TM-ABC transporter signature motif; other site 469008012568 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 469008012569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008012570 Walker A/P-loop; other site 469008012571 ATP binding site [chemical binding]; other site 469008012572 Q-loop/lid; other site 469008012573 ABC transporter signature motif; other site 469008012574 Walker B; other site 469008012575 D-loop; other site 469008012576 H-loop/switch region; other site 469008012577 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008012578 D-allose transporter subunit; Provisional; Region: PRK09701 469008012579 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 469008012580 ligand binding site [chemical binding]; other site 469008012581 dimerization interface [polypeptide binding]; other site 469008012582 zinc binding site [ion binding]; other site 469008012583 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 469008012584 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008012585 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 469008012586 putative active site [active] 469008012587 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 469008012588 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 469008012589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008012590 Coenzyme A binding pocket [chemical binding]; other site 469008012591 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 469008012592 AAA domain; Region: AAA_18; pfam13238 469008012593 active site 469008012594 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 469008012595 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 469008012596 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 469008012597 active site 469008012598 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 469008012599 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008012600 Walker A/P-loop; other site 469008012601 ATP binding site [chemical binding]; other site 469008012602 Q-loop/lid; other site 469008012603 ABC transporter signature motif; other site 469008012604 Walker B; other site 469008012605 D-loop; other site 469008012606 H-loop/switch region; other site 469008012607 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 469008012608 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008012609 Walker A/P-loop; other site 469008012610 ATP binding site [chemical binding]; other site 469008012611 Q-loop/lid; other site 469008012612 ABC transporter signature motif; other site 469008012613 Walker B; other site 469008012614 D-loop; other site 469008012615 H-loop/switch region; other site 469008012616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008012617 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 469008012618 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 469008012619 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 469008012620 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 469008012621 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 469008012622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008012623 DNA-binding site [nucleotide binding]; DNA binding site 469008012624 UTRA domain; Region: UTRA; pfam07702 469008012625 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 469008012626 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 469008012627 dimer interface [polypeptide binding]; other site 469008012628 conserved gate region; other site 469008012629 putative PBP binding loops; other site 469008012630 ABC-ATPase subunit interface; other site 469008012631 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 469008012632 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 469008012633 substrate binding pocket [chemical binding]; other site 469008012634 membrane-bound complex binding site; other site 469008012635 hinge residues; other site 469008012636 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 469008012637 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 469008012638 Walker A/P-loop; other site 469008012639 ATP binding site [chemical binding]; other site 469008012640 Q-loop/lid; other site 469008012641 ABC transporter signature motif; other site 469008012642 Walker B; other site 469008012643 D-loop; other site 469008012644 H-loop/switch region; other site 469008012645 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 469008012646 dimer interface [polypeptide binding]; other site 469008012647 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008012648 hypothetical protein; Provisional; Region: PRK10220 469008012649 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 469008012650 PhnA protein; Region: PhnA; pfam03831 469008012651 hypothetical protein; Provisional; Region: PRK09866 469008012652 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 469008012653 G1 box; other site 469008012654 GTP/Mg2+ binding site [chemical binding]; other site 469008012655 G2 box; other site 469008012656 Switch I region; other site 469008012657 G3 box; other site 469008012658 Switch II region; other site 469008012659 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469008012660 G2 box; other site 469008012661 Switch I region; other site 469008012662 G3 box; other site 469008012663 Switch II region; other site 469008012664 G4 box; other site 469008012665 G5 box; other site 469008012666 YjcZ-like protein; Region: YjcZ; pfam13990 469008012667 proline/glycine betaine transporter; Provisional; Region: PRK10642 469008012668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012669 putative substrate translocation pore; other site 469008012670 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 469008012671 sensor protein BasS/PmrB; Provisional; Region: PRK10755 469008012672 HAMP domain; Region: HAMP; pfam00672 469008012673 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 469008012674 dimer interface [polypeptide binding]; other site 469008012675 phosphorylation site [posttranslational modification] 469008012676 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 469008012677 ATP binding site [chemical binding]; other site 469008012678 Mg2+ binding site [ion binding]; other site 469008012679 G-X-G motif; other site 469008012680 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 469008012681 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 469008012682 active site 469008012683 phosphorylation site [posttranslational modification] 469008012684 intermolecular recognition site; other site 469008012685 dimerization interface [polypeptide binding]; other site 469008012686 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 469008012687 DNA binding site [nucleotide binding] 469008012688 putative metal dependent hydrolase; Provisional; Region: PRK11598 469008012689 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008012690 Sulfatase; Region: Sulfatase; pfam00884 469008012691 arginine:agmatin antiporter; Provisional; Region: PRK10644 469008012692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008012693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012694 arginine decarboxylase; Provisional; Region: PRK15029 469008012695 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008012696 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 469008012697 homodimer interface [polypeptide binding]; other site 469008012698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012699 catalytic residue [active] 469008012700 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008012701 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 469008012702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012704 alpha-galactosidase; Provisional; Region: PRK15076 469008012705 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 469008012706 NAD binding site [chemical binding]; other site 469008012707 sugar binding site [chemical binding]; other site 469008012708 divalent metal binding site [ion binding]; other site 469008012709 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008012710 dimer interface [polypeptide binding]; other site 469008012711 melibiose:sodium symporter; Provisional; Region: PRK10429 469008012712 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008012713 hypothetical protein; Provisional; Region: PRK09867 469008012714 fumarate hydratase; Provisional; Region: PRK15389 469008012715 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 469008012716 Fumarase C-terminus; Region: Fumerase_C; pfam05683 469008012717 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 469008012718 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 469008012719 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 469008012720 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 469008012721 active site 469008012722 phosphorylation site [posttranslational modification] 469008012723 intermolecular recognition site; other site 469008012724 dimerization interface [polypeptide binding]; other site 469008012725 Transcriptional regulator; Region: CitT; pfam12431 469008012726 Uncharacterized conserved protein [Function unknown]; Region: COG3592 469008012727 Predicted acetyltransferase [General function prediction only]; Region: COG2388 469008012728 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 469008012729 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 469008012730 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 469008012731 dimer interface [polypeptide binding]; other site 469008012732 putative anticodon binding site; other site 469008012733 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 469008012734 motif 1; other site 469008012735 active site 469008012736 motif 2; other site 469008012737 motif 3; other site 469008012738 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008012739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012740 putative substrate translocation pore; other site 469008012741 POT family; Region: PTR2; pfam00854 469008012742 lysine decarboxylase CadA; Provisional; Region: PRK15400 469008012743 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008012744 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 469008012745 homodimer interface [polypeptide binding]; other site 469008012746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012747 catalytic residue [active] 469008012748 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008012749 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 469008012750 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 469008012751 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 469008012752 DNA binding site [nucleotide binding] 469008012753 putative transcriptional regulator; Provisional; Region: PRK11640 469008012754 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008012755 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 469008012756 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 469008012757 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 469008012758 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 469008012759 DsbD alpha interface [polypeptide binding]; other site 469008012760 catalytic residues [active] 469008012761 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 469008012762 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 469008012763 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 469008012764 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 469008012765 Aspartase; Region: Aspartase; cd01357 469008012766 active sites [active] 469008012767 tetramer interface [polypeptide binding]; other site 469008012768 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 469008012769 putative transporter; Provisional; Region: PRK11021 469008012770 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 469008012771 oligomerisation interface [polypeptide binding]; other site 469008012772 mobile loop; other site 469008012773 roof hairpin; other site 469008012774 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 469008012775 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 469008012776 ring oligomerisation interface [polypeptide binding]; other site 469008012777 ATP/Mg binding site [chemical binding]; other site 469008012778 stacking interactions; other site 469008012779 hinge regions; other site 469008012780 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 469008012781 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 469008012782 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 469008012783 FeS/SAM binding site; other site 469008012784 elongation factor P; Validated; Region: PRK00529 469008012785 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469008012786 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 469008012787 RNA binding site [nucleotide binding]; other site 469008012788 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 469008012789 RNA binding site [nucleotide binding]; other site 469008012790 entericidin A; Provisional; Region: PRK09810 469008012791 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 469008012792 multidrug efflux system protein; Provisional; Region: PRK11431 469008012793 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 469008012794 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 469008012795 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 469008012796 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 469008012797 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 469008012798 Iron-sulfur protein interface; other site 469008012799 proximal quinone binding site [chemical binding]; other site 469008012800 C-subunit interface; other site 469008012801 distal quinone binding site; other site 469008012802 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 469008012803 D-subunit interface [polypeptide binding]; other site 469008012804 Iron-sulfur protein interface; other site 469008012805 proximal quinone binding site [chemical binding]; other site 469008012806 distal quinone binding site [chemical binding]; other site 469008012807 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 469008012808 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 469008012809 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 469008012810 L-aspartate oxidase; Provisional; Region: PRK06175 469008012811 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008012812 poxB regulator PoxA; Provisional; Region: PRK09350 469008012813 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 469008012814 motif 1; other site 469008012815 dimer interface [polypeptide binding]; other site 469008012816 active site 469008012817 motif 2; other site 469008012818 motif 3; other site 469008012819 inner membrane transporter YjeM; Provisional; Region: PRK15238 469008012820 putative mechanosensitive channel protein; Provisional; Region: PRK10929 469008012821 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 469008012822 DNA-binding site [nucleotide binding]; DNA binding site 469008012823 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 469008012824 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008012825 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 469008012826 GTPase RsgA; Reviewed; Region: PRK12288 469008012827 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 469008012828 RNA binding site [nucleotide binding]; other site 469008012829 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 469008012830 GTPase/Zn-binding domain interface [polypeptide binding]; other site 469008012831 GTP/Mg2+ binding site [chemical binding]; other site 469008012832 G4 box; other site 469008012833 G5 box; other site 469008012834 G1 box; other site 469008012835 Switch I region; other site 469008012836 G2 box; other site 469008012837 G3 box; other site 469008012838 Switch II region; other site 469008012839 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 469008012840 catalytic site [active] 469008012841 putative active site [active] 469008012842 putative substrate binding site [chemical binding]; other site 469008012843 dimer interface [polypeptide binding]; other site 469008012844 epoxyqueuosine reductase; Region: TIGR00276 469008012845 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 469008012846 putative carbohydrate kinase; Provisional; Region: PRK10565 469008012847 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 469008012848 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 469008012849 putative substrate binding site [chemical binding]; other site 469008012850 putative ATP binding site [chemical binding]; other site 469008012851 ADP-binding protein; Provisional; Region: PRK10646 469008012852 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 469008012853 AMIN domain; Region: AMIN; pfam11741 469008012854 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 469008012855 active site 469008012856 metal binding site [ion binding]; metal-binding site 469008012857 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 469008012858 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 469008012859 ATP binding site [chemical binding]; other site 469008012860 Mg2+ binding site [ion binding]; other site 469008012861 G-X-G motif; other site 469008012862 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 469008012863 ATP binding site [chemical binding]; other site 469008012864 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 469008012865 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 469008012866 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 469008012867 bacterial Hfq-like; Region: Hfq; cd01716 469008012868 hexamer interface [polypeptide binding]; other site 469008012869 Sm1 motif; other site 469008012870 RNA binding site [nucleotide binding]; other site 469008012871 Sm2 motif; other site 469008012872 GTPase HflX; Provisional; Region: PRK11058 469008012873 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 469008012874 HflX GTPase family; Region: HflX; cd01878 469008012875 G1 box; other site 469008012876 GTP/Mg2+ binding site [chemical binding]; other site 469008012877 Switch I region; other site 469008012878 G2 box; other site 469008012879 G3 box; other site 469008012880 Switch II region; other site 469008012881 G4 box; other site 469008012882 G5 box; other site 469008012883 FtsH protease regulator HflK; Provisional; Region: PRK10930 469008012884 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 469008012885 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 469008012886 FtsH protease regulator HflC; Provisional; Region: PRK11029 469008012887 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 469008012888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 469008012889 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 469008012890 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 469008012891 GDP-binding site [chemical binding]; other site 469008012892 ACT binding site; other site 469008012893 IMP binding site; other site 469008012894 Predicted transcriptional regulator [Transcription]; Region: COG1959 469008012895 transcriptional repressor NsrR; Provisional; Region: PRK11014 469008012896 exoribonuclease R; Provisional; Region: PRK11642 469008012897 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 469008012898 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469008012899 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 469008012900 RNB domain; Region: RNB; pfam00773 469008012901 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 469008012902 RNA binding site [nucleotide binding]; other site 469008012903 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 469008012904 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 469008012905 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008012906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 469008012907 PspA/IM30 family; Region: PspA_IM30; pfam04012 469008012908 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 469008012909 Predicted membrane protein [Function unknown]; Region: COG3766 469008012910 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 469008012911 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 469008012912 Predicted integral membrane protein [Function unknown]; Region: COG5463 469008012913 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008012914 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 469008012915 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 469008012916 FAD binding site [chemical binding]; other site 469008012917 substrate binding site [chemical binding]; other site 469008012918 catalytic residues [active] 469008012919 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008012920 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 469008012921 esterase; Provisional; Region: PRK10566 469008012922 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008012923 transcriptional repressor UlaR; Provisional; Region: PRK13509 469008012924 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008012925 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008012926 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 469008012927 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469008012928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 469008012929 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 469008012930 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 469008012931 active site 469008012932 P-loop; other site 469008012933 phosphorylation site [posttranslational modification] 469008012934 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 469008012935 active site 469008012936 phosphorylation site [posttranslational modification] 469008012937 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 469008012938 active site 469008012939 dimer interface [polypeptide binding]; other site 469008012940 magnesium binding site [ion binding]; other site 469008012941 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 469008012942 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 469008012943 AP (apurinic/apyrimidinic) site pocket; other site 469008012944 DNA interaction; other site 469008012945 Metal-binding active site; metal-binding site 469008012946 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008012947 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 469008012948 intersubunit interface [polypeptide binding]; other site 469008012949 active site 469008012950 Zn2+ binding site [ion binding]; other site 469008012951 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008012952 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 469008012953 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 469008012954 dimer interface [polypeptide binding]; other site 469008012955 ssDNA binding site [nucleotide binding]; other site 469008012956 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008012957 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 469008012958 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 469008012959 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 469008012960 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 469008012961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012962 D-galactonate transporter; Region: 2A0114; TIGR00893 469008012963 putative substrate translocation pore; other site 469008012964 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 469008012965 L-aspartate oxidase; Provisional; Region: PRK06175 469008012966 L-aspartate oxidase; Provisional; Region: PRK06175 469008012967 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 469008012968 Coenzyme A transferase; Region: CoA_trans; smart00882 469008012969 Coenzyme A transferase; Region: CoA_trans; cl17247 469008012970 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 469008012971 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 469008012972 substrate binding site [chemical binding]; other site 469008012973 oxyanion hole (OAH) forming residues; other site 469008012974 trimer interface [polypeptide binding]; other site 469008012975 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 469008012976 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 469008012977 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 469008012978 putative NAD(P) binding site [chemical binding]; other site 469008012979 active site 469008012980 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 469008012981 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 469008012982 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 469008012983 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 469008012984 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 469008012985 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008012986 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 469008012987 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 469008012988 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 469008012989 Hemerythrin-like domain; Region: Hr-like; cd12108 469008012990 Fe binding site [ion binding]; other site 469008012991 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469008012992 EamA-like transporter family; Region: EamA; pfam00892 469008012993 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 469008012994 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 469008012995 NADP binding site [chemical binding]; other site 469008012996 Predicted transcriptional regulators [Transcription]; Region: COG1733 469008012997 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469008012998 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 469008012999 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 469008013000 active site 469008013001 metal binding site [ion binding]; metal-binding site 469008013002 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 469008013003 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 469008013004 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 469008013005 active site 469008013006 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 469008013007 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 469008013008 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469008013009 Domain of unknown function DUF21; Region: DUF21; pfam01595 469008013010 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 469008013011 Transporter associated domain; Region: CorC_HlyC; smart01091 469008013012 methionine sulfoxide reductase A; Provisional; Region: PRK00058 469008013013 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 469008013014 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008013015 Surface antigen; Region: Bac_surface_Ag; pfam01103 469008013016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 469008013017 Family of unknown function (DUF490); Region: DUF490; pfam04357 469008013018 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 469008013019 putative active site pocket [active] 469008013020 dimerization interface [polypeptide binding]; other site 469008013021 putative catalytic residue [active] 469008013022 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 469008013023 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 469008013024 dimer interface [polypeptide binding]; other site 469008013025 substrate binding site [chemical binding]; other site 469008013026 metal binding sites [ion binding]; metal-binding site 469008013027 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 469008013028 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 469008013029 putative ligand binding site [chemical binding]; other site 469008013030 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008013031 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008013032 Walker A/P-loop; other site 469008013033 ATP binding site [chemical binding]; other site 469008013034 Q-loop/lid; other site 469008013035 ABC transporter signature motif; other site 469008013036 Walker B; other site 469008013037 D-loop; other site 469008013038 H-loop/switch region; other site 469008013039 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008013040 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008013041 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 469008013042 TM-ABC transporter signature motif; other site 469008013043 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008013044 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 469008013045 TM-ABC transporter signature motif; other site 469008013046 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 469008013047 AMP binding site [chemical binding]; other site 469008013048 metal binding site [ion binding]; metal-binding site 469008013049 active site 469008013050 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 469008013051 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008013052 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008013053 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008013054 hypothetical protein; Provisional; Region: PRK05255 469008013055 peptidase PmbA; Provisional; Region: PRK11040 469008013056 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 469008013057 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 469008013058 FeS/SAM binding site; other site 469008013059 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 469008013060 ATP cone domain; Region: ATP-cone; pfam03477 469008013061 Class III ribonucleotide reductase; Region: RNR_III; cd01675 469008013062 effector binding site; other site 469008013063 active site 469008013064 Zn binding site [ion binding]; other site 469008013065 glycine loop; other site 469008013066 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 469008013067 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 469008013068 Ca binding site [ion binding]; other site 469008013069 active site 469008013070 catalytic site [active] 469008013071 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 469008013072 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 469008013073 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 469008013074 active site turn [active] 469008013075 phosphorylation site [posttranslational modification] 469008013076 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008013077 trehalose repressor; Provisional; Region: treR; PRK09492 469008013078 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008013079 DNA binding site [nucleotide binding] 469008013080 domain linker motif; other site 469008013081 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 469008013082 dimerization interface [polypeptide binding]; other site 469008013083 ligand binding site [chemical binding]; other site 469008013084 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 469008013085 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 469008013086 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008013087 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 469008013088 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 469008013089 motif II; other site 469008013090 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 469008013091 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 469008013092 homotrimer interaction site [polypeptide binding]; other site 469008013093 putative active site [active] 469008013094 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 469008013095 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 469008013096 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 469008013097 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 469008013098 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008013099 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008013100 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 469008013101 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 469008013102 homotrimer interaction site [polypeptide binding]; other site 469008013103 putative active site [active] 469008013104 oxidoreductase; Provisional; Region: PRK12742 469008013105 classical (c) SDRs; Region: SDR_c; cd05233 469008013106 NAD(P) binding site [chemical binding]; other site 469008013107 active site 469008013108 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008013109 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008013110 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 469008013111 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 469008013112 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008013113 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008013114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 469008013115 RNase E inhibitor protein; Provisional; Region: PRK11191 469008013116 Predicted membrane protein [Function unknown]; Region: COG4269 469008013117 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 469008013118 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469008013119 HIGH motif; other site 469008013120 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469008013121 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469008013122 active site 469008013123 KMSKS motif; other site 469008013124 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 469008013125 tRNA binding surface [nucleotide binding]; other site 469008013126 anticodon binding site; other site 469008013127 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 469008013128 DNA polymerase III subunit chi; Validated; Region: PRK05728 469008013129 multifunctional aminopeptidase A; Provisional; Region: PRK00913 469008013130 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 469008013131 interface (dimer of trimers) [polypeptide binding]; other site 469008013132 Substrate-binding/catalytic site; other site 469008013133 Zn-binding sites [ion binding]; other site 469008013134 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 469008013135 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008013136 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 469008013137 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008013138 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 469008013139 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 469008013140 Walker A motif; other site 469008013141 ATP binding site [chemical binding]; other site 469008013142 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 469008013143 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008013144 DNA binding site [nucleotide binding] 469008013145 domain linker motif; other site 469008013146 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 469008013147 putative dimerization interface [polypeptide binding]; other site 469008013148 putative ligand binding site [chemical binding]; other site 469008013149 fructuronate transporter; Provisional; Region: PRK10034; cl15264 469008013150 gluconate transporter; Region: gntP; TIGR00791 469008013151 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 469008013152 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 469008013153 NADP binding site [chemical binding]; other site 469008013154 homodimer interface [polypeptide binding]; other site 469008013155 active site 469008013156 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 469008013157 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 469008013158 putative NAD(P) binding site [chemical binding]; other site 469008013159 catalytic Zn binding site [ion binding]; other site 469008013160 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 469008013161 ATP-binding site [chemical binding]; other site 469008013162 Gluconate-6-phosphate binding site [chemical binding]; other site 469008013163 Shikimate kinase; Region: SKI; pfam01202 469008013164 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 469008013165 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 469008013166 putative NAD(P) binding site [chemical binding]; other site 469008013167 putative substrate binding site [chemical binding]; other site 469008013168 catalytic Zn binding site [ion binding]; other site 469008013169 structural Zn binding site [ion binding]; other site 469008013170 dimer interface [polypeptide binding]; other site 469008013171 phage-like element KpLE2 469008013172 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 469008013173 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469008013174 active site 469008013175 Int/Topo IB signature motif; other site 469008013176 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 469008013177 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 469008013178 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008013179 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008013180 putative sialic acid transporter; Provisional; Region: PRK12307 469008013181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013182 putative substrate translocation pore; other site 469008013183 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008013184 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008013185 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008013186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008013187 Transposase; Region: HTH_Tnp_1; cl17663 469008013188 putative transposase OrfB; Reviewed; Region: PHA02517 469008013189 HTH-like domain; Region: HTH_21; pfam13276 469008013190 Integrase core domain; Region: rve; pfam00665 469008013191 Integrase core domain; Region: rve_3; pfam13683 469008013192 BCCT family transporter; Region: BCCT; cl00569 469008013193 putative transposase OrfB; Reviewed; Region: PHA02517 469008013194 Integrase core domain; Region: rve; pfam00665 469008013195 Integrase core domain; Region: rve_3; pfam13683 469008013196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008013197 Transposase; Region: HTH_Tnp_1; pfam01527 469008013198 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 469008013199 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 469008013200 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008013201 Walker A/P-loop; other site 469008013202 ATP binding site [chemical binding]; other site 469008013203 Q-loop/lid; other site 469008013204 ABC transporter signature motif; other site 469008013205 Walker B; other site 469008013206 D-loop; other site 469008013207 H-loop/switch region; other site 469008013208 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008013209 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 469008013210 ABC-ATPase subunit interface; other site 469008013211 dimer interface [polypeptide binding]; other site 469008013212 putative PBP binding regions; other site 469008013213 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008013214 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 469008013215 dimer interface [polypeptide binding]; other site 469008013216 ABC-ATPase subunit interface; other site 469008013217 putative PBP binding regions; other site 469008013218 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 469008013219 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 469008013220 siderophore binding site; other site 469008013221 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 469008013222 Secretin and TonB N terminus short domain; Region: STN; smart00965 469008013223 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 469008013224 N-terminal plug; other site 469008013225 ligand-binding site [chemical binding]; other site 469008013226 fec operon regulator FecR; Reviewed; Region: PRK09774 469008013227 FecR protein; Region: FecR; pfam04773 469008013228 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 469008013229 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008013230 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 469008013231 DNA binding residues [nucleotide binding] 469008013232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013233 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013234 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013235 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013236 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013237 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013238 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013239 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008013240 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008013241 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008013242 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469008013243 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 469008013244 substrate binding site [chemical binding]; other site 469008013245 hexamer interface [polypeptide binding]; other site 469008013246 metal binding site [ion binding]; metal-binding site 469008013247 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 469008013248 active site 469008013249 phosphorylation site [posttranslational modification] 469008013250 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 469008013251 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 469008013252 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 469008013253 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 469008013254 active site 469008013255 P-loop; other site 469008013256 phosphorylation site [posttranslational modification] 469008013257 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 469008013258 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 469008013259 oligomer interface [polypeptide binding]; other site 469008013260 active site 469008013261 metal binding site [ion binding]; metal-binding site 469008013262 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008013263 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 469008013264 S-adenosylmethionine binding site [chemical binding]; other site 469008013265 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 469008013266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008013267 Coenzyme A binding pocket [chemical binding]; other site 469008013268 hypothetical protein; Provisional; Region: PRK13687 469008013269 Domain of unknown function (DUF303); Region: DUF303; pfam03629 469008013270 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 469008013271 Kelch motif; Region: Kelch_1; pfam01344 469008013272 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 469008013273 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013275 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013276 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013277 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 469008013278 Int/Topo IB signature motif; other site 469008013279 Fimbrial protein; Region: Fimbrial; cl01416 469008013280 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013281 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 469008013282 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008013283 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008013284 outer membrane usher protein; Provisional; Region: PRK15193 469008013285 PapC N-terminal domain; Region: PapC_N; pfam13954 469008013286 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008013287 PapC C-terminal domain; Region: PapC_C; pfam13953 469008013288 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013289 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013290 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 469008013291 mannosyl binding site [chemical binding]; other site 469008013292 Fimbrial protein; Region: Fimbrial; pfam00419 469008013293 fructuronate transporter; Provisional; Region: PRK10034 469008013294 gluconate transporter; Region: gntP; TIGR00791 469008013295 mannonate dehydratase; Region: uxuA; TIGR00695 469008013296 mannonate dehydratase; Provisional; Region: PRK03906 469008013297 D-mannonate oxidoreductase; Provisional; Region: PRK15037 469008013298 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008013299 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008013300 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 469008013301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008013302 DNA-binding site [nucleotide binding]; DNA binding site 469008013303 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008013304 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 469008013305 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 469008013306 cell density-dependent motility repressor; Provisional; Region: PRK10082 469008013307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008013308 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 469008013309 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 469008013310 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 469008013311 dimer interface [polypeptide binding]; other site 469008013312 active site 469008013313 hypothetical protein; Provisional; Region: PRK10519 469008013314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 469008013315 Nucleoside recognition; Region: Gate; pfam07670 469008013316 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 469008013317 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 469008013318 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 469008013319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 469008013320 SdiA-regulated; Region: SdiA-regulated; cd09971 469008013321 putative active site [active] 469008013322 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469008013323 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 469008013324 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469008013325 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 469008013326 Predicted membrane protein [Function unknown]; Region: COG2733 469008013327 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 469008013328 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013329 putative substrate translocation pore; other site 469008013330 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008013331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013332 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013333 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013334 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013335 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 469008013336 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 469008013337 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 469008013338 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 469008013339 Walker A motif; other site 469008013340 ATP binding site [chemical binding]; other site 469008013341 Walker B motif; other site 469008013342 arginine finger; other site 469008013343 endoribonuclease SymE; Provisional; Region: PRK13605 469008013344 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013345 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013346 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013347 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013348 HsdM N-terminal domain; Region: HsdM_N; pfam12161 469008013349 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 469008013350 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469008013351 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 469008013352 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 469008013353 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 469008013354 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 469008013355 ATP binding site [chemical binding]; other site 469008013356 putative Mg++ binding site [ion binding]; other site 469008013357 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 469008013358 Mrr N-terminal domain; Region: Mrr_N; pfam14338 469008013359 Restriction endonuclease; Region: Mrr_cat; pfam04471 469008013360 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 469008013361 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 469008013362 P-loop, Walker A motif; other site 469008013363 Base recognition motif; other site 469008013364 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 469008013365 Uncharacterized small protein [Function unknown]; Region: COG2879 469008013366 carbon starvation protein A; Provisional; Region: PRK15015 469008013367 Carbon starvation protein CstA; Region: CstA; pfam02554 469008013368 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 469008013369 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 469008013370 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 469008013371 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 469008013372 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 469008013373 Cupin domain; Region: Cupin_2; pfam07883 469008013374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008013375 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013376 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 469008013377 putative substrate translocation pore; other site 469008013378 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 469008013379 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 469008013380 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 469008013381 putative substrate binding pocket [chemical binding]; other site 469008013382 trimer interface [polypeptide binding]; other site 469008013383 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 469008013384 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008013385 putative active site [active] 469008013386 putative metal binding site [ion binding]; other site 469008013387 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 469008013388 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 469008013389 NAD binding site [chemical binding]; other site 469008013390 catalytic residues [active] 469008013391 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 469008013392 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 469008013393 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 469008013394 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 469008013395 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008013396 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 469008013397 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008013398 dimer interface [polypeptide binding]; other site 469008013399 ligand binding site [chemical binding]; other site 469008013400 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 469008013401 dimerization interface [polypeptide binding]; other site 469008013402 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008013403 dimer interface [polypeptide binding]; other site 469008013404 putative CheW interface [polypeptide binding]; other site 469008013405 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013406 D-galactonate transporter; Region: 2A0114; TIGR00893 469008013407 putative substrate translocation pore; other site 469008013408 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008013409 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 469008013410 putative NAD(P) binding site [chemical binding]; other site 469008013411 catalytic Zn binding site [ion binding]; other site 469008013412 structural Zn binding site [ion binding]; other site 469008013413 phosphoglycerol transferase I; Provisional; Region: PRK03776 469008013414 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 469008013415 hypothetical protein; Provisional; Region: PRK11667 469008013416 DNA replication protein DnaC; Validated; Region: PRK07952 469008013417 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 469008013418 Walker A motif; other site 469008013419 ATP binding site [chemical binding]; other site 469008013420 Walker B motif; other site 469008013421 primosomal protein DnaI; Provisional; Region: PRK02854 469008013422 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 469008013423 Uncharacterized conserved protein [Function unknown]; Region: COG2966 469008013424 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 469008013425 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008013426 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 469008013427 DNA binding residues [nucleotide binding] 469008013428 dimerization interface [polypeptide binding]; other site 469008013429 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 469008013430 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 469008013431 DNA binding residues [nucleotide binding] 469008013432 dimerization interface [polypeptide binding]; other site 469008013433 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 469008013434 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 469008013435 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 469008013436 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 469008013437 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 469008013438 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 469008013439 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 469008013440 S-adenosylmethionine binding site [chemical binding]; other site 469008013441 DNA polymerase III subunit psi; Validated; Region: PRK06856 469008013442 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 469008013443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008013444 Coenzyme A binding pocket [chemical binding]; other site 469008013445 dUMP phosphatase; Provisional; Region: PRK09449 469008013446 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 469008013447 motif II; other site 469008013448 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 469008013449 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 469008013450 G1 box; other site 469008013451 putative GEF interaction site [polypeptide binding]; other site 469008013452 GTP/Mg2+ binding site [chemical binding]; other site 469008013453 Switch I region; other site 469008013454 G2 box; other site 469008013455 G3 box; other site 469008013456 Switch II region; other site 469008013457 G4 box; other site 469008013458 G5 box; other site 469008013459 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 469008013460 periplasmic protein; Provisional; Region: PRK10568 469008013461 BON domain; Region: BON; pfam04972 469008013462 BON domain; Region: BON; pfam04972 469008013463 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 469008013464 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 469008013465 active site 469008013466 nucleophile elbow; other site 469008013467 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008013468 active site 469008013469 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 469008013470 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 469008013471 FeS/SAM binding site; other site 469008013472 hypothetical protein; Provisional; Region: PRK10977 469008013473 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 469008013474 intersubunit interface [polypeptide binding]; other site 469008013475 active site 469008013476 catalytic residue [active] 469008013477 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 469008013478 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008013479 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 469008013480 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 469008013481 phosphopentomutase; Provisional; Region: PRK05362 469008013482 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 469008013483 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 469008013484 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 469008013485 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 469008013486 non-specific DNA binding site [nucleotide binding]; other site 469008013487 salt bridge; other site 469008013488 sequence-specific DNA binding site [nucleotide binding]; other site 469008013489 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 469008013490 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 469008013491 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 469008013492 hypothetical protein; Provisional; Region: PRK11246 469008013493 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 469008013494 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 469008013495 motif II; other site 469008013496 DNA repair protein RadA; Region: sms; TIGR00416 469008013497 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 469008013498 Walker A motif/ATP binding site; other site 469008013499 ATP binding site [chemical binding]; other site 469008013500 Walker B motif; other site 469008013501 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469008013502 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 469008013503 non-specific DNA binding site [nucleotide binding]; other site 469008013504 salt bridge; other site 469008013505 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 469008013506 sequence-specific DNA binding site [nucleotide binding]; other site 469008013507 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 469008013508 active site 469008013509 (T/H)XGH motif; other site 469008013510 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 469008013511 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 469008013512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008013513 Walker A/P-loop; other site 469008013514 ATP binding site [chemical binding]; other site 469008013515 Q-loop/lid; other site 469008013516 ABC transporter signature motif; other site 469008013517 Walker B; other site 469008013518 D-loop; other site 469008013519 H-loop/switch region; other site 469008013520 ABC transporter; Region: ABC_tran_2; pfam12848 469008013521 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008013522 lytic murein transglycosylase; Provisional; Region: PRK11619 469008013523 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 469008013524 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008013525 catalytic residue [active] 469008013526 Trp operon repressor; Provisional; Region: PRK01381 469008013527 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 469008013528 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 469008013529 catalytic core [active] 469008013530 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 469008013531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008013532 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 469008013533 hypothetical protein; Provisional; Region: PRK10756 469008013534 CreA protein; Region: CreA; pfam05981 469008013535 DNA-binding response regulator CreB; Provisional; Region: PRK11083 469008013536 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 469008013537 active site 469008013538 phosphorylation site [posttranslational modification] 469008013539 intermolecular recognition site; other site 469008013540 dimerization interface [polypeptide binding]; other site 469008013541 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 469008013542 DNA binding site [nucleotide binding] 469008013543 sensory histidine kinase CreC; Provisional; Region: PRK11100 469008013544 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 469008013545 dimerization interface [polypeptide binding]; other site 469008013546 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 469008013547 dimer interface [polypeptide binding]; other site 469008013548 phosphorylation site [posttranslational modification] 469008013549 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 469008013550 ATP binding site [chemical binding]; other site 469008013551 Mg2+ binding site [ion binding]; other site 469008013552 G-X-G motif; other site 469008013553 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 469008013554 two-component response regulator; Provisional; Region: PRK11173 469008013555 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 469008013556 active site 469008013557 phosphorylation site [posttranslational modification] 469008013558 intermolecular recognition site; other site 469008013559 dimerization interface [polypeptide binding]; other site 469008013560 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 469008013561 DNA binding site [nucleotide binding] 469008013562 putative RNA methyltransferase; Provisional; Region: PRK10433 469008013563 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050