-- dump date 20140619_081552 -- 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 hypothetical protein; Provisional; Region: PRK10154 469008000037 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 469008000038 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 469008000039 nucleotide binding site [chemical binding]; other site 469008000040 NEF interaction site [polypeptide binding]; other site 469008000041 SBD interface [polypeptide binding]; other site 469008000042 chaperone protein DnaJ; Provisional; Region: PRK10767 469008000043 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 469008000044 HSP70 interaction site [polypeptide binding]; other site 469008000045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 469008000046 substrate binding site [polypeptide binding]; other site 469008000047 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 469008000048 Zn binding sites [ion binding]; other site 469008000049 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469008000050 dimer interface [polypeptide binding]; other site 469008000051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008000052 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008000053 Hok/gef family; Region: HOK_GEF; pfam01848 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 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 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000068 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000069 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000070 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000071 conserved hypothetical protein, N-ter fragment 469008000072 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 469008000073 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 469008000074 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 469008000075 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 469008000076 active site 469008000077 Riboflavin kinase; Region: Flavokinase; smart00904 469008000078 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 469008000079 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469008000080 HIGH motif; other site 469008000081 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469008000082 active site 469008000083 KMSKS motif; other site 469008000084 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 469008000085 tRNA binding surface [nucleotide binding]; other site 469008000086 anticodon binding site; other site 469008000087 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008000088 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 469008000089 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 469008000090 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008000091 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 469008000092 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 469008000093 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 469008000094 active site 469008000095 tetramer interface [polypeptide binding]; other site 469008000096 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 469008000097 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 469008000098 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 469008000099 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 469008000100 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 469008000101 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 469008000102 catalytic site [active] 469008000103 subunit interface [polypeptide binding]; other site 469008000104 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 469008000105 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008000106 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469008000107 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 469008000108 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008000109 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469008000110 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 469008000111 IMP binding site; other site 469008000112 dimer interface [polypeptide binding]; other site 469008000113 interdomain contacts; other site 469008000114 partial ornithine binding site; other site 469008000115 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 469008000116 carnitine operon protein CaiE; Provisional; Region: PRK13627 469008000117 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 469008000118 putative trimer interface [polypeptide binding]; other site 469008000119 putative metal binding site [ion binding]; other site 469008000120 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 469008000121 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 469008000122 substrate binding site [chemical binding]; other site 469008000123 oxyanion hole (OAH) forming residues; other site 469008000124 trimer interface [polypeptide binding]; other site 469008000125 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 469008000126 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 469008000127 acyl-activating enzyme (AAE) consensus motif; other site 469008000128 putative AMP binding site [chemical binding]; other site 469008000129 putative active site [active] 469008000130 putative CoA binding site [chemical binding]; other site 469008000132 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 469008000133 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 469008000134 active site 469008000135 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 469008000136 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 469008000137 Ligand binding site [chemical binding]; other site 469008000138 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008000139 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 469008000140 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 469008000141 Ligand binding site [chemical binding]; other site 469008000142 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008000143 putative oxidoreductase FixC; Provisional; Region: PRK10157 469008000144 ferredoxin-like protein FixX; Provisional; Region: PRK15449 469008000145 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000146 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 469008000147 putative substrate translocation pore; other site 469008000148 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 469008000149 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 469008000150 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 469008000151 TrkA-N domain; Region: TrkA_N; pfam02254 469008000152 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 469008000153 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 469008000154 folate binding site [chemical binding]; other site 469008000155 NADP+ binding site [chemical binding]; other site 469008000156 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 469008000157 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 469008000158 active site 469008000159 metal binding site [ion binding]; metal-binding site 469008000160 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 469008000161 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 469008000162 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 469008000163 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 469008000164 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 469008000165 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 469008000166 SurA N-terminal domain; Region: SurA_N; pfam09312 469008000167 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469008000168 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469008000169 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 469008000170 OstA-like protein; Region: OstA; pfam03968 469008000171 Organic solvent tolerance protein; Region: OstA_C; pfam04453 469008000172 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 469008000173 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 469008000174 putative metal binding site [ion binding]; other site 469008000175 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 469008000176 HSP70 interaction site [polypeptide binding]; other site 469008000177 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469008000178 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008000179 active site 469008000180 ATP-dependent helicase HepA; Validated; Region: PRK04914 469008000181 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 469008000182 ATP binding site [chemical binding]; other site 469008000183 putative Mg++ binding site [ion binding]; other site 469008000184 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 469008000185 nucleotide binding region [chemical binding]; other site 469008000186 ATP-binding site [chemical binding]; other site 469008000187 DNA polymerase II; Reviewed; Region: PRK05762 469008000188 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 469008000189 active site 469008000190 catalytic site [active] 469008000191 substrate binding site [chemical binding]; other site 469008000192 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 469008000193 active site 469008000194 metal-binding site 469008000195 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008000196 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 469008000197 intersubunit interface [polypeptide binding]; other site 469008000198 active site 469008000199 Zn2+ binding site [ion binding]; other site 469008000200 L-arabinose isomerase; Provisional; Region: PRK02929 469008000201 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 469008000202 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008000203 trimer interface [polypeptide binding]; other site 469008000204 putative substrate binding site [chemical binding]; other site 469008000205 putative metal binding site [ion binding]; other site 469008000206 ribulokinase; Provisional; Region: PRK04123 469008000207 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 469008000208 N- and C-terminal domain interface [polypeptide binding]; other site 469008000209 active site 469008000210 MgATP binding site [chemical binding]; other site 469008000211 catalytic site [active] 469008000212 metal binding site [ion binding]; metal-binding site 469008000213 carbohydrate binding site [chemical binding]; other site 469008000214 homodimer interface [polypeptide binding]; other site 469008000215 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 469008000216 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008000217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008000220 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008000221 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 469008000222 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 469008000223 Walker A/P-loop; other site 469008000224 ATP binding site [chemical binding]; other site 469008000225 Q-loop/lid; other site 469008000226 ABC transporter signature motif; other site 469008000227 Walker B; other site 469008000228 D-loop; other site 469008000229 H-loop/switch region; other site 469008000230 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 469008000231 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 469008000232 dimer interface [polypeptide binding]; other site 469008000233 conserved gate region; other site 469008000234 putative PBP binding loops; other site 469008000235 ABC-ATPase subunit interface; other site 469008000236 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 469008000237 dimer interface [polypeptide binding]; other site 469008000238 conserved gate region; other site 469008000239 putative PBP binding loops; other site 469008000240 ABC-ATPase subunit interface; other site 469008000241 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 469008000242 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 469008000243 transcriptional regulator SgrR; Provisional; Region: PRK13626 469008000244 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 469008000245 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 469008000246 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000247 sugar efflux transporter; Region: 2A0120; TIGR00899 469008000248 putative substrate translocation pore; other site 469008000249 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 469008000250 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 469008000251 substrate binding site [chemical binding]; other site 469008000252 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 469008000253 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 469008000254 substrate binding site [chemical binding]; other site 469008000255 ligand binding site [chemical binding]; other site 469008000256 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 469008000257 tartrate dehydrogenase; Region: TTC; TIGR02089 469008000258 2-isopropylmalate synthase; Validated; Region: PRK00915 469008000259 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 469008000260 active site 469008000261 catalytic residues [active] 469008000262 metal binding site [ion binding]; metal-binding site 469008000263 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 469008000264 leu operon leader peptide; Provisional; Region: PRK09925 469008000265 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 469008000266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000267 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 469008000268 putative substrate binding pocket [chemical binding]; other site 469008000269 putative dimerization interface [polypeptide binding]; other site 469008000270 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 469008000271 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008000272 PYR/PP interface [polypeptide binding]; other site 469008000273 dimer interface [polypeptide binding]; other site 469008000274 TPP binding site [chemical binding]; other site 469008000275 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008000276 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 469008000277 TPP-binding site [chemical binding]; other site 469008000278 dimer interface [polypeptide binding]; other site 469008000279 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 469008000280 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 469008000281 putative valine binding site [chemical binding]; other site 469008000282 dimer interface [polypeptide binding]; other site 469008000283 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 469008000284 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 469008000285 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008000286 DNA binding site [nucleotide binding] 469008000287 domain linker motif; other site 469008000288 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 469008000289 dimerization interface [polypeptide binding]; other site 469008000290 ligand binding site [chemical binding]; other site 469008000291 mraZ protein; Region: TIGR00242 469008000292 MraZ protein; Region: MraZ; pfam02381 469008000293 MraZ protein; Region: MraZ; pfam02381 469008000294 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 469008000295 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 469008000296 cell division protein FtsL; Provisional; Region: PRK10772 469008000297 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 469008000298 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469008000299 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469008000300 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 469008000301 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000302 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000303 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000304 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 469008000305 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000306 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000307 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000308 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 469008000309 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 469008000310 Mg++ binding site [ion binding]; other site 469008000311 putative catalytic motif [active] 469008000312 putative substrate binding site [chemical binding]; other site 469008000313 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 469008000314 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000315 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000316 cell division protein FtsW; Provisional; Region: PRK10774 469008000317 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 469008000318 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 469008000319 active site 469008000320 homodimer interface [polypeptide binding]; other site 469008000321 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 469008000322 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008000323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008000324 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008000325 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 469008000326 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469008000327 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 469008000328 cell division protein FtsQ; Provisional; Region: PRK10775 469008000329 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 469008000330 Cell division protein FtsQ; Region: FtsQ; pfam03799 469008000331 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 469008000332 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008000333 Cell division protein FtsA; Region: FtsA; pfam14450 469008000334 cell division protein FtsZ; Validated; Region: PRK09330 469008000335 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 469008000336 nucleotide binding site [chemical binding]; other site 469008000337 SulA interaction site; other site 469008000338 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 469008000339 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 469008000340 SecA regulator SecM; Provisional; Region: PRK02943 469008000341 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 469008000342 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 469008000343 SEC-C motif; Region: SEC-C; pfam02810 469008000344 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 469008000345 active site 469008000346 8-oxo-dGMP binding site [chemical binding]; other site 469008000347 nudix motif; other site 469008000348 metal binding site [ion binding]; metal-binding site 469008000349 DNA gyrase inhibitor; Reviewed; Region: PRK00418 469008000350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 469008000351 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 469008000352 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 469008000353 CoA-binding site [chemical binding]; other site 469008000354 ATP-binding [chemical binding]; other site 469008000355 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 469008000356 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 469008000357 active site 469008000358 type IV pilin biogenesis protein; Provisional; Region: PRK10573 469008000359 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008000360 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008000361 hypothetical protein; Provisional; Region: PRK10436 469008000362 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 469008000363 Walker A motif; other site 469008000364 ATP binding site [chemical binding]; other site 469008000365 Walker B motif; other site 469008000366 putative major pilin subunit; Provisional; Region: PRK10574 469008000367 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008000368 Pilin (bacterial filament); Region: Pilin; pfam00114 469008000369 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 469008000370 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 469008000371 dimerization interface [polypeptide binding]; other site 469008000372 active site 469008000373 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469008000374 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 469008000375 amidase catalytic site [active] 469008000376 Zn binding residues [ion binding]; other site 469008000377 substrate binding site [chemical binding]; other site 469008000378 regulatory protein AmpE; Provisional; Region: PRK10987 469008000379 aromatic amino acid transporter; Provisional; Region: PRK10238 469008000380 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008000381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008000382 DNA-binding site [nucleotide binding]; DNA binding site 469008000383 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008000384 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 469008000385 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 469008000386 dimer interface [polypeptide binding]; other site 469008000387 TPP-binding site [chemical binding]; other site 469008000388 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 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 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 469008000393 E3 interaction surface; other site 469008000394 lipoyl attachment site [posttranslational modification]; other site 469008000395 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 469008000396 E3 interaction surface; other site 469008000397 lipoyl attachment site [posttranslational modification]; other site 469008000398 e3 binding domain; Region: E3_binding; pfam02817 469008000399 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 469008000400 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 469008000401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008000402 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008000403 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008000404 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 469008000405 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 469008000406 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 469008000407 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 469008000408 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 469008000409 substrate binding site [chemical binding]; other site 469008000410 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 469008000411 substrate binding site [chemical binding]; other site 469008000412 ligand binding site [chemical binding]; other site 469008000413 hypothetical protein; Provisional; Region: PRK05248 469008000414 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 469008000415 spermidine synthase; Provisional; Region: PRK00811 469008000416 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 469008000417 S-adenosylmethionine binding site [chemical binding]; other site 469008000418 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 469008000419 multicopper oxidase; Provisional; Region: PRK10965 469008000420 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 469008000421 Multicopper oxidase; Region: Cu-oxidase; pfam00394 469008000422 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 469008000423 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 469008000424 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 469008000425 Trp docking motif [polypeptide binding]; other site 469008000426 putative active site [active] 469008000427 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008000428 active site 469008000429 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 469008000430 active site clefts [active] 469008000431 zinc binding site [ion binding]; other site 469008000432 dimer interface [polypeptide binding]; other site 469008000433 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 469008000434 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008000435 Walker A/P-loop; other site 469008000436 ATP binding site [chemical binding]; other site 469008000437 Q-loop/lid; other site 469008000438 ABC transporter signature motif; other site 469008000439 Walker B; other site 469008000440 D-loop; other site 469008000441 H-loop/switch region; other site 469008000442 inner membrane transport permease; Provisional; Region: PRK15066 469008000443 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008000444 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 469008000445 active pocket/dimerization site; other site 469008000446 active site 469008000447 phosphorylation site [posttranslational modification] 469008000448 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 469008000449 putative active site [active] 469008000450 putative metal binding site [ion binding]; other site 469008000451 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 469008000452 tetramerization interface [polypeptide binding]; other site 469008000453 active site 469008000454 Uncharacterized conserved protein [Function unknown]; Region: COG5464 469008000455 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008000456 pantoate--beta-alanine ligase; Region: panC; TIGR00018 469008000457 Pantoate-beta-alanine ligase; Region: PanC; cd00560 469008000458 active site 469008000459 ATP-binding site [chemical binding]; other site 469008000460 pantoate-binding site; other site 469008000461 HXXH motif; other site 469008000462 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 469008000463 oligomerization interface [polypeptide binding]; other site 469008000464 active site 469008000465 metal binding site [ion binding]; metal-binding site 469008000466 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 469008000467 putative fimbrial protein StaF; Provisional; Region: PRK15262 469008000468 putative fimbrial protein StaE; Provisional; Region: PRK15263 469008000469 Fimbrial protein; Region: Fimbrial; cl01416 469008000470 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 469008000471 PapC N-terminal domain; Region: PapC_N; pfam13954 469008000472 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008000473 PapC C-terminal domain; Region: PapC_C; pfam13953 469008000474 putative chaperone protein EcpD; Provisional; Region: PRK09926 469008000475 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008000476 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008000477 Fimbrial protein; Region: Fimbrial; cl01416 469008000478 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 469008000479 catalytic center binding site [active] 469008000480 ATP binding site [chemical binding]; other site 469008000481 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 469008000482 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469008000483 active site 469008000484 NTP binding site [chemical binding]; other site 469008000485 metal binding triad [ion binding]; metal-binding site 469008000486 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469008000487 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 469008000488 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 469008000489 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 469008000490 active site 469008000491 nucleotide binding site [chemical binding]; other site 469008000492 HIGH motif; other site 469008000493 KMSKS motif; other site 469008000494 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 469008000495 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 469008000496 2'-5' RNA ligase; Provisional; Region: PRK15124 469008000497 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 469008000498 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 469008000499 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 469008000500 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 469008000501 ATP binding site [chemical binding]; other site 469008000502 putative Mg++ binding site [ion binding]; other site 469008000503 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 469008000504 nucleotide binding region [chemical binding]; other site 469008000505 ATP-binding site [chemical binding]; other site 469008000506 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 469008000507 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 469008000508 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 469008000509 Transglycosylase; Region: Transgly; pfam00912 469008000510 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008000511 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 469008000512 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 469008000513 N-terminal plug; other site 469008000514 ligand-binding site [chemical binding]; other site 469008000515 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 469008000516 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008000517 Walker A/P-loop; other site 469008000518 ATP binding site [chemical binding]; other site 469008000519 Q-loop/lid; other site 469008000520 ABC transporter signature motif; other site 469008000521 Walker B; other site 469008000522 D-loop; other site 469008000523 H-loop/switch region; other site 469008000524 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 469008000525 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469008000526 siderophore binding site; other site 469008000527 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008000528 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 469008000529 ABC-ATPase subunit interface; other site 469008000530 dimer interface [polypeptide binding]; other site 469008000531 putative PBP binding regions; other site 469008000532 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 469008000533 ABC-ATPase subunit interface; other site 469008000534 dimer interface [polypeptide binding]; other site 469008000535 putative PBP binding regions; other site 469008000536 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 469008000537 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 469008000538 inhibitor-cofactor binding pocket; inhibition site 469008000539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008000540 catalytic residue [active] 469008000541 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008000542 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 469008000543 Cl- selectivity filter; other site 469008000544 Cl- binding residues [ion binding]; other site 469008000545 pore gating glutamate residue; other site 469008000546 dimer interface [polypeptide binding]; other site 469008000547 H+/Cl- coupling transport residue; other site 469008000548 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 469008000549 hypothetical protein; Provisional; Region: PRK10578 469008000550 UPF0126 domain; Region: UPF0126; pfam03458 469008000551 UPF0126 domain; Region: UPF0126; pfam03458 469008000552 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 469008000553 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 469008000554 cobalamin binding residues [chemical binding]; other site 469008000555 putative BtuC binding residues; other site 469008000556 dimer interface [polypeptide binding]; other site 469008000557 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 469008000558 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 469008000559 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 469008000560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008000561 Zn2+ binding site [ion binding]; other site 469008000562 Mg2+ binding site [ion binding]; other site 469008000563 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 469008000564 serine endoprotease; Provisional; Region: PRK10942 469008000565 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008000566 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 469008000567 protein binding site [polypeptide binding]; other site 469008000568 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 469008000569 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 469008000570 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 469008000571 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 469008000572 hypothetical protein; Provisional; Region: PRK13677 469008000573 phosphodiesterase YaeI; Provisional; Region: PRK11340 469008000574 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 469008000575 putative active site [active] 469008000576 putative metal binding site [ion binding]; other site 469008000577 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 469008000578 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 469008000579 trimer interface [polypeptide binding]; other site 469008000580 active site 469008000581 substrate binding site [chemical binding]; other site 469008000582 CoA binding site [chemical binding]; other site 469008000583 PII uridylyl-transferase; Provisional; Region: PRK05007 469008000584 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008000585 metal binding triad; other site 469008000586 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008000587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008000588 Zn2+ binding site [ion binding]; other site 469008000589 Mg2+ binding site [ion binding]; other site 469008000590 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 469008000591 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 469008000592 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 469008000593 active site 469008000594 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 469008000595 rRNA interaction site [nucleotide binding]; other site 469008000596 S8 interaction site; other site 469008000597 putative laminin-1 binding site; other site 469008000598 elongation factor Ts; Provisional; Region: tsf; PRK09377 469008000599 UBA/TS-N domain; Region: UBA; pfam00627 469008000600 Elongation factor TS; Region: EF_TS; pfam00889 469008000601 Elongation factor TS; Region: EF_TS; pfam00889 469008000602 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 469008000603 putative nucleotide binding site [chemical binding]; other site 469008000604 uridine monophosphate binding site [chemical binding]; other site 469008000605 homohexameric interface [polypeptide binding]; other site 469008000606 ribosome recycling factor; Reviewed; Region: frr; PRK00083 469008000607 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 469008000608 hinge region; other site 469008000609 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 469008000610 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 469008000611 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 469008000612 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 469008000613 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 469008000614 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 469008000615 catalytic residue [active] 469008000616 putative FPP diphosphate binding site; other site 469008000617 putative FPP binding hydrophobic cleft; other site 469008000618 dimer interface [polypeptide binding]; other site 469008000619 putative IPP diphosphate binding site; other site 469008000620 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 469008000621 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469008000622 zinc metallopeptidase RseP; Provisional; Region: PRK10779 469008000623 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 469008000624 active site 469008000625 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 469008000626 protein binding site [polypeptide binding]; other site 469008000627 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 469008000628 putative substrate binding region [chemical binding]; other site 469008000629 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 469008000630 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000631 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000632 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000633 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000634 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008000635 Surface antigen; Region: Bac_surface_Ag; pfam01103 469008000636 periplasmic chaperone; Provisional; Region: PRK10780 469008000637 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 469008000638 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 469008000639 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 469008000640 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 469008000641 trimer interface [polypeptide binding]; other site 469008000642 active site 469008000643 UDP-GlcNAc binding site [chemical binding]; other site 469008000644 lipid binding site [chemical binding]; lipid-binding site 469008000645 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 469008000646 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 469008000647 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 469008000648 active site 469008000649 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 469008000650 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 469008000651 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 469008000652 RNA/DNA hybrid binding site [nucleotide binding]; other site 469008000653 active site 469008000654 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 469008000655 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 469008000656 putative active site [active] 469008000657 putative PHP Thumb interface [polypeptide binding]; other site 469008000658 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 469008000659 generic binding surface II; other site 469008000660 generic binding surface I; other site 469008000661 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 469008000662 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 469008000663 lysine decarboxylase LdcC; Provisional; Region: PRK15399 469008000664 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008000665 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 469008000666 homodimer interface [polypeptide binding]; other site 469008000667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008000668 catalytic residue [active] 469008000669 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008000670 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 469008000671 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008000672 putative metal binding site [ion binding]; other site 469008000673 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 469008000674 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 469008000675 Ligand Binding Site [chemical binding]; other site 469008000676 TilS substrate binding domain; Region: TilS; pfam09179 469008000677 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 469008000678 Rho-binding antiterminator; Provisional; Region: PRK11625 469008000679 hypothetical protein; Provisional; Region: PRK04964 469008000680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 469008000681 hypothetical protein; Provisional; Region: PRK09256 469008000682 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 469008000683 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 469008000684 NlpE N-terminal domain; Region: NlpE; pfam04170 469008000685 hypothetical protein; Provisional; Region: PRK11479 469008000686 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 469008000687 prolyl-tRNA synthetase; Provisional; Region: PRK09194 469008000688 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 469008000689 dimer interface [polypeptide binding]; other site 469008000690 motif 1; other site 469008000691 active site 469008000692 motif 2; other site 469008000693 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 469008000694 putative deacylase active site [active] 469008000695 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 469008000696 active site 469008000697 motif 3; other site 469008000698 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 469008000699 anticodon binding site; other site 469008000700 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 469008000701 homodimer interaction site [polypeptide binding]; other site 469008000702 cofactor binding site; other site 469008000703 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 469008000704 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 469008000705 lipoprotein, YaeC family; Region: TIGR00363 469008000706 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 469008000707 dimer interface [polypeptide binding]; other site 469008000708 conserved gate region; other site 469008000709 ABC-ATPase subunit interface; other site 469008000710 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 469008000711 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 469008000712 Walker A/P-loop; other site 469008000713 ATP binding site [chemical binding]; other site 469008000714 Q-loop/lid; other site 469008000715 ABC transporter signature motif; other site 469008000716 Walker B; other site 469008000717 D-loop; other site 469008000718 H-loop/switch region; other site 469008000719 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 469008000720 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 469008000721 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 469008000722 active site 469008000723 motif I; other site 469008000724 motif II; other site 469008000725 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 469008000726 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008000727 active site 469008000728 catalytic tetrad [active] 469008000729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008000730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000731 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 469008000732 putative effector binding pocket; other site 469008000733 dimerization interface [polypeptide binding]; other site 469008000734 hypothetical protein; Provisional; Region: PRK05421 469008000735 putative catalytic site [active] 469008000736 putative metal binding site [ion binding]; other site 469008000737 putative phosphate binding site [ion binding]; other site 469008000738 putative catalytic site [active] 469008000739 putative phosphate binding site [ion binding]; other site 469008000740 putative metal binding site [ion binding]; other site 469008000741 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008000742 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 469008000743 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 469008000744 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 469008000745 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008000746 catalytic residue [active] 469008000747 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008000748 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008000749 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 469008000750 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 469008000751 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 469008000752 RNA/DNA hybrid binding site [nucleotide binding]; other site 469008000753 active site 469008000754 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 469008000755 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 469008000756 active site 469008000757 catalytic site [active] 469008000758 substrate binding site [chemical binding]; other site 469008000759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000760 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000761 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000762 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000764 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000765 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000766 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000767 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008000768 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008000769 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008000770 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008000771 C-N hydrolase family amidase; Provisional; Region: PRK10438 469008000772 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 469008000773 putative active site [active] 469008000774 catalytic triad [active] 469008000775 dimer interface [polypeptide binding]; other site 469008000776 multimer interface [polypeptide binding]; other site 469008000777 C-lysozyme inhibitor; Provisional; Region: PRK09993 469008000778 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 469008000779 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 469008000780 active site 469008000781 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 469008000782 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 469008000783 dimer interface [polypeptide binding]; other site 469008000784 active site 469008000785 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 469008000786 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 469008000787 putative active site [active] 469008000788 putative dimer interface [polypeptide binding]; other site 469008000789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 469008000790 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008000791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 469008000792 RelB antitoxin; Region: RelB; cl01171 469008000793 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008000794 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008000795 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 469008000797 predicted flagellar motor protein 469008000798 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 469008000799 active site 469008000800 DNA polymerase IV; Validated; Region: PRK02406 469008000801 DNA binding site [nucleotide binding] 469008000802 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 469008000803 putative toxin YafO; Provisional; Region: PRK09885 469008000804 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008000805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008000806 Coenzyme A binding pocket [chemical binding]; other site 469008000807 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 469008000808 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 469008000809 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 469008000810 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 469008000811 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 469008000812 metal binding site [ion binding]; metal-binding site 469008000813 dimer interface [polypeptide binding]; other site 469008000814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008000815 active site 469008000816 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 469008000817 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 469008000818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000819 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000820 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000821 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008000823 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008000824 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008000825 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008000826 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008000827 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 469008000828 trimer interface [polypeptide binding]; other site 469008000829 eyelet of channel; other site 469008000830 gamma-glutamyl kinase; Provisional; Region: PRK05429 469008000831 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 469008000832 nucleotide binding site [chemical binding]; other site 469008000833 homotetrameric interface [polypeptide binding]; other site 469008000834 putative phosphate binding site [ion binding]; other site 469008000835 putative allosteric binding site; other site 469008000836 PUA domain; Region: PUA; pfam01472 469008000837 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 469008000838 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 469008000839 putative catalytic cysteine [active] 469008000840 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 469008000841 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 469008000842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008000843 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 469008000844 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 469008000845 XdhC Rossmann domain; Region: XdhC_C; pfam13478 469008000846 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 469008000847 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008000848 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008000849 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 469008000850 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 469008000851 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 469008000852 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 469008000853 catalytic loop [active] 469008000854 iron binding site [ion binding]; other site 469008000855 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008000856 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 469008000857 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 469008000858 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008000859 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 469008000860 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008000861 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 469008000862 DNA binding residues [nucleotide binding] 469008000863 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 469008000864 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 469008000865 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008000866 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 469008000867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000868 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 469008000869 Predicted membrane protein [Function unknown]; Region: COG3059 469008000870 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008000871 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 469008000872 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008000873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008000874 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008000875 Cupin; Region: Cupin_6; pfam12852 469008000876 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008000877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008000878 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469008000879 Cysteine-rich domain; Region: CCG; pfam02754 469008000880 Cysteine-rich domain; Region: CCG; pfam02754 469008000881 iron-sulfur cluster-binding protein; Region: TIGR00273 469008000882 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 469008000883 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 469008000884 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 469008000885 Uncharacterized conserved protein [Function unknown]; Region: COG1556 469008000886 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008000887 choline dehydrogenase; Validated; Region: PRK02106 469008000888 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 469008000889 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 469008000890 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 469008000891 tetrameric interface [polypeptide binding]; other site 469008000892 NAD binding site [chemical binding]; other site 469008000893 catalytic residues [active] 469008000894 transcriptional regulator BetI; Validated; Region: PRK00767 469008000895 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008000896 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 469008000897 choline transport protein BetT; Provisional; Region: PRK09928 469008000898 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 469008000899 DNA binding residues [nucleotide binding] 469008000900 dimerization interface [polypeptide binding]; other site 469008000901 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 469008000902 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 469008000903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000904 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 469008000905 dimerization interface [polypeptide binding]; other site 469008000906 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 469008000907 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469008000908 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 469008000909 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469008000910 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008000911 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 469008000912 CoA binding domain; Region: CoA_binding; pfam02629 469008000913 CoA-ligase; Region: Ligase_CoA; pfam00549 469008000914 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008000915 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 469008000916 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 469008000917 putative substrate binding site [chemical binding]; other site 469008000918 nucleotide binding site [chemical binding]; other site 469008000919 nucleotide binding site [chemical binding]; other site 469008000920 homodimer interface [polypeptide binding]; other site 469008000921 putative deaminase; Validated; Region: PRK06846 469008000922 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 469008000923 active site 469008000924 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 469008000925 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 469008000926 putative NAD(P) binding site [chemical binding]; other site 469008000927 putative substrate binding site [chemical binding]; other site 469008000928 catalytic Zn binding site [ion binding]; other site 469008000929 structural Zn binding site [ion binding]; other site 469008000930 dimer interface [polypeptide binding]; other site 469008000931 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 469008000932 hypothetical protein; Provisional; Region: PRK09929 469008000933 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 469008000934 Propionate catabolism activator; Region: PrpR_N; pfam06506 469008000935 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 469008000936 Walker A motif; other site 469008000937 ATP binding site [chemical binding]; other site 469008000938 Walker B motif; other site 469008000939 arginine finger; other site 469008000940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008000941 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 469008000942 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 469008000943 tetramer interface [polypeptide binding]; other site 469008000944 active site 469008000945 Mg2+/Mn2+ binding site [ion binding]; other site 469008000946 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 469008000947 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 469008000948 dimer interface [polypeptide binding]; other site 469008000949 active site 469008000950 citrylCoA binding site [chemical binding]; other site 469008000951 oxalacetate/citrate binding site [chemical binding]; other site 469008000952 coenzyme A binding site [chemical binding]; other site 469008000953 catalytic triad [active] 469008000954 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 469008000955 2-methylcitrate dehydratase; Region: prpD; TIGR02330 469008000956 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 469008000957 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 469008000958 acyl-activating enzyme (AAE) consensus motif; other site 469008000959 putative AMP binding site [chemical binding]; other site 469008000960 putative active site [active] 469008000961 putative CoA binding site [chemical binding]; other site 469008000962 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 469008000963 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 469008000964 Na binding site [ion binding]; other site 469008000965 putative substrate binding site [chemical binding]; other site 469008000966 cytosine deaminase; Provisional; Region: PRK09230 469008000967 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 469008000968 active site 469008000969 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 469008000970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008000971 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 469008000972 dimerization interface [polypeptide binding]; other site 469008000973 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 469008000974 active site clefts [active] 469008000975 zinc binding site [ion binding]; other site 469008000976 dimer interface [polypeptide binding]; other site 469008000977 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 469008000978 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 469008000979 oligomer interface [polypeptide binding]; other site 469008000980 active site 469008000981 putative cyanate transporter; Provisional; Region: cynX; PRK09705 469008000982 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000983 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 469008000984 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 469008000985 active site 469008000986 substrate binding site [chemical binding]; other site 469008000987 trimer interface [polypeptide binding]; other site 469008000988 CoA binding site [chemical binding]; other site 469008000989 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 469008000990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008000991 putative substrate translocation pore; other site 469008000992 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 469008000993 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008000994 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008000995 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008000996 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 469008000997 lac repressor; Reviewed; Region: lacI; PRK09526 469008000998 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008000999 DNA binding site [nucleotide binding] 469008001000 domain linker motif; other site 469008001001 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 469008001002 ligand binding site [chemical binding]; other site 469008001003 dimerization interface (open form) [polypeptide binding]; other site 469008001004 dimerization interface (closed form) [polypeptide binding]; other site 469008001005 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 469008001006 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008001007 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008001008 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 469008001009 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008001010 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 469008001011 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008001012 putative active site [active] 469008001013 Fe(II) binding site [ion binding]; other site 469008001014 putative dimer interface [polypeptide binding]; other site 469008001015 putative tetramer interface [polypeptide binding]; other site 469008001016 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 469008001017 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 469008001018 nucleophilic elbow; other site 469008001019 catalytic triad; other site 469008001020 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 469008001021 acetaldehyde dehydrogenase; Validated; Region: PRK08300 469008001022 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008001023 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 469008001024 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 469008001025 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 469008001026 active site 469008001027 catalytic residues [active] 469008001028 metal binding site [ion binding]; metal-binding site 469008001029 DmpG-like communication domain; Region: DmpG_comm; pfam07836 469008001030 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 469008001031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 469008001034 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 469008001035 S-formylglutathione hydrolase; Region: PLN02442 469008001036 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 469008001037 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 469008001038 substrate binding site [chemical binding]; other site 469008001039 catalytic Zn binding site [ion binding]; other site 469008001040 NAD binding site [chemical binding]; other site 469008001041 structural Zn binding site [ion binding]; other site 469008001042 dimer interface [polypeptide binding]; other site 469008001043 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 469008001044 putative metal binding site [ion binding]; other site 469008001045 putative homodimer interface [polypeptide binding]; other site 469008001046 putative homotetramer interface [polypeptide binding]; other site 469008001047 putative homodimer-homodimer interface [polypeptide binding]; other site 469008001048 putative allosteric switch controlling residues; other site 469008001049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001050 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001051 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001052 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001053 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001055 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001056 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001057 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 469008001058 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 469008001059 substrate binding pocket [chemical binding]; other site 469008001060 membrane-bound complex binding site; other site 469008001061 hinge residues; other site 469008001062 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 469008001063 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469008001064 Walker A/P-loop; other site 469008001065 ATP binding site [chemical binding]; other site 469008001066 Q-loop/lid; other site 469008001067 ABC transporter signature motif; other site 469008001068 Walker B; other site 469008001069 D-loop; other site 469008001070 H-loop/switch region; other site 469008001071 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008001072 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 469008001073 dimer interface [polypeptide binding]; other site 469008001074 conserved gate region; other site 469008001075 putative PBP binding loops; other site 469008001076 ABC-ATPase subunit interface; other site 469008001077 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 469008001078 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 469008001079 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 469008001080 dimer interface [polypeptide binding]; other site 469008001081 active site 469008001082 Schiff base residues; other site 469008001083 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 469008001084 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008001085 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008001086 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 469008001087 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 469008001088 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 469008001089 microcin B17 transporter; Reviewed; Region: PRK11098 469008001090 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 469008001091 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 469008001092 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 469008001093 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 469008001094 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469008001095 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 469008001096 anti-RssB factor; Provisional; Region: PRK10244 469008001097 alkaline phosphatase; Provisional; Region: PRK10518 469008001098 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 469008001099 dimer interface [polypeptide binding]; other site 469008001100 active site 469008001101 hypothetical protein; Provisional; Region: PRK11505 469008001102 psiF repeat; Region: PsiF_repeat; pfam07769 469008001103 psiF repeat; Region: PsiF_repeat; pfam07769 469008001104 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 469008001105 MASE2 domain; Region: MASE2; pfam05230 469008001106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008001107 metal binding site [ion binding]; metal-binding site 469008001108 active site 469008001109 I-site; other site 469008001110 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 469008001111 pyrroline-5-carboxylate reductase; Region: PLN02688 469008001112 hypothetical protein; Validated; Region: PRK00124 469008001113 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 469008001114 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 469008001115 ADP binding site [chemical binding]; other site 469008001116 magnesium binding site [ion binding]; other site 469008001117 putative shikimate binding site; other site 469008001118 hypothetical protein; Provisional; Region: PRK10380 469008001119 hypothetical protein; Provisional; Region: PRK10481 469008001120 hypothetical protein; Provisional; Region: PRK10579 469008001121 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 469008001122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001123 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001124 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001125 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001126 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001127 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001128 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001129 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001130 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 469008001131 fructokinase; Reviewed; Region: PRK09557 469008001132 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008001133 nucleotide binding site [chemical binding]; other site 469008001134 MFS transport protein AraJ; Provisional; Region: PRK10091 469008001135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001136 putative substrate translocation pore; other site 469008001137 exonuclease subunit SbcC; Provisional; Region: PRK10246 469008001138 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001139 Walker A/P-loop; other site 469008001140 ATP binding site [chemical binding]; other site 469008001141 Q-loop/lid; other site 469008001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001143 ABC transporter signature motif; other site 469008001144 Walker B; other site 469008001145 D-loop; other site 469008001146 H-loop/switch region; other site 469008001147 exonuclease subunit SbcD; Provisional; Region: PRK10966 469008001148 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 469008001149 active site 469008001150 metal binding site [ion binding]; metal-binding site 469008001151 DNA binding site [nucleotide binding] 469008001152 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 469008001153 transcriptional regulator PhoB; Provisional; Region: PRK10161 469008001154 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 469008001155 active site 469008001156 phosphorylation site [posttranslational modification] 469008001157 intermolecular recognition site; other site 469008001158 dimerization interface [polypeptide binding]; other site 469008001159 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 469008001160 DNA binding site [nucleotide binding] 469008001161 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 469008001162 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 469008001163 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 469008001164 putative active site [active] 469008001165 heme pocket [chemical binding]; other site 469008001166 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 469008001167 dimer interface [polypeptide binding]; other site 469008001168 phosphorylation site [posttranslational modification] 469008001169 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 469008001170 ATP binding site [chemical binding]; other site 469008001171 Mg2+ binding site [ion binding]; other site 469008001172 G-X-G motif; other site 469008001173 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 469008001174 putative proline-specific permease; Provisional; Region: proY; PRK10580 469008001175 Spore germination protein; Region: Spore_permease; cl17796 469008001176 maltodextrin glucosidase; Provisional; Region: PRK10785 469008001177 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 469008001178 homodimer interface [polypeptide binding]; other site 469008001179 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 469008001180 active site 469008001181 homodimer interface [polypeptide binding]; other site 469008001182 catalytic site [active] 469008001183 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 469008001184 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 469008001185 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 469008001186 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 469008001187 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 469008001188 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 469008001189 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 469008001190 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 469008001191 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469008001192 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 469008001193 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 469008001194 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469008001195 Protein export membrane protein; Region: SecD_SecF; pfam02355 469008001196 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 469008001197 active site 469008001198 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 469008001199 hypothetical protein; Provisional; Region: PRK11530 469008001200 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 469008001201 ATP cone domain; Region: ATP-cone; pfam03477 469008001202 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 469008001203 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 469008001204 catalytic motif [active] 469008001205 Zn binding site [ion binding]; other site 469008001206 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 469008001207 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 469008001208 homopentamer interface [polypeptide binding]; other site 469008001209 active site 469008001210 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 469008001211 putative RNA binding site [nucleotide binding]; other site 469008001212 thiamine monophosphate kinase; Provisional; Region: PRK05731 469008001213 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 469008001214 ATP binding site [chemical binding]; other site 469008001215 dimerization interface [polypeptide binding]; other site 469008001216 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 469008001217 tetramer interfaces [polypeptide binding]; other site 469008001218 binuclear metal-binding site [ion binding]; other site 469008001219 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 469008001220 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008001221 active site 469008001222 catalytic tetrad [active] 469008001223 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 469008001224 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 469008001225 TPP-binding site; other site 469008001226 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 469008001227 PYR/PP interface [polypeptide binding]; other site 469008001228 dimer interface [polypeptide binding]; other site 469008001229 TPP binding site [chemical binding]; other site 469008001230 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008001231 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469008001232 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469008001233 substrate binding pocket [chemical binding]; other site 469008001234 chain length determination region; other site 469008001235 substrate-Mg2+ binding site; other site 469008001236 catalytic residues [active] 469008001237 aspartate-rich region 1; other site 469008001238 active site lid residues [active] 469008001239 aspartate-rich region 2; other site 469008001240 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 469008001241 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 469008001242 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 469008001243 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 469008001244 Ligand Binding Site [chemical binding]; other site 469008001245 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 469008001246 active site residue [active] 469008001247 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 469008001248 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469008001249 conserved cys residue [active] 469008001250 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 469008001251 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 469008001252 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 469008001253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 469008001254 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 469008001255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008001257 putative substrate translocation pore; other site 469008001258 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008001259 Sel1 repeat; Region: Sel1; pfam08238 469008001260 Sel1-like repeats; Region: SEL1; smart00671 469008001261 Sel1-like repeats; Region: SEL1; smart00671 469008001262 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 469008001263 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 469008001264 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 469008001265 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008001266 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 469008001267 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 469008001268 Subunit I/III interface [polypeptide binding]; other site 469008001269 Subunit III/IV interface [polypeptide binding]; other site 469008001270 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 469008001271 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 469008001272 D-pathway; other site 469008001273 Putative ubiquinol binding site [chemical binding]; other site 469008001274 Low-spin heme (heme b) binding site [chemical binding]; other site 469008001275 Putative water exit pathway; other site 469008001276 Binuclear center (heme o3/CuB) [ion binding]; other site 469008001277 K-pathway; other site 469008001278 Putative proton exit pathway; other site 469008001279 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 469008001280 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 469008001281 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 469008001282 muropeptide transporter; Reviewed; Region: ampG; PRK11902 469008001283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001284 putative substrate translocation pore; other site 469008001285 hypothetical protein; Provisional; Region: PRK11627 469008001286 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 469008001287 transcriptional regulator BolA; Provisional; Region: PRK11628 469008001288 trigger factor; Provisional; Region: tig; PRK01490 469008001289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008001290 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 469008001291 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 469008001292 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 469008001293 oligomer interface [polypeptide binding]; other site 469008001294 active site residues [active] 469008001295 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 469008001296 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 469008001297 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 469008001298 Walker A motif; other site 469008001299 ATP binding site [chemical binding]; other site 469008001300 Walker B motif; other site 469008001301 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469008001302 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008001303 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008001304 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 469008001305 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469008001306 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469008001307 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 469008001308 Walker A motif; other site 469008001309 ATP binding site [chemical binding]; other site 469008001310 Walker B motif; other site 469008001311 arginine finger; other site 469008001312 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469008001313 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 469008001314 IHF dimer interface [polypeptide binding]; other site 469008001315 IHF - DNA interface [nucleotide binding]; other site 469008001316 periplasmic folding chaperone; Provisional; Region: PRK10788 469008001317 SurA N-terminal domain; Region: SurA_N_3; cl07813 469008001318 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 469008001319 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 469008001320 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 469008001321 active site 469008001322 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 469008001323 Ligand Binding Site [chemical binding]; other site 469008001324 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 469008001325 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 469008001326 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 469008001327 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 469008001328 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 469008001329 active site 469008001330 motif I; other site 469008001331 motif II; other site 469008001332 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 469008001333 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 469008001334 putative DNA binding site [nucleotide binding]; other site 469008001335 putative Zn2+ binding site [ion binding]; other site 469008001336 AsnC family; Region: AsnC_trans_reg; pfam01037 469008001337 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008001338 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 469008001339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001340 Walker A/P-loop; other site 469008001341 ATP binding site [chemical binding]; other site 469008001342 Q-loop/lid; other site 469008001343 ABC transporter signature motif; other site 469008001344 Walker B; other site 469008001345 D-loop; other site 469008001346 H-loop/switch region; other site 469008001347 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 469008001348 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008001349 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 469008001350 Walker A/P-loop; other site 469008001351 ATP binding site [chemical binding]; other site 469008001352 Q-loop/lid; other site 469008001353 ABC transporter signature motif; other site 469008001354 Walker B; other site 469008001355 D-loop; other site 469008001356 H-loop/switch region; other site 469008001357 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 469008001358 Nitrogen regulatory protein P-II; Region: P-II; smart00938 469008001359 ammonium transporter; Provisional; Region: PRK10666 469008001360 acyl-CoA thioesterase II; Provisional; Region: PRK10526 469008001361 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 469008001362 active site 469008001363 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 469008001364 catalytic triad [active] 469008001365 dimer interface [polypeptide binding]; other site 469008001366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 469008001367 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 469008001368 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 469008001369 DNA binding site [nucleotide binding] 469008001370 active site 469008001371 Uncharacterized conserved protein [Function unknown]; Region: COG5507 469008001372 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 469008001373 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008001374 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 469008001375 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 469008001376 maltose O-acetyltransferase; Provisional; Region: PRK10092 469008001377 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 469008001378 active site 469008001379 substrate binding site [chemical binding]; other site 469008001380 trimer interface [polypeptide binding]; other site 469008001381 CoA binding site [chemical binding]; other site 469008001382 gene expression modulator; Provisional; Region: PRK10945 469008001383 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 469008001384 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 469008001385 Protein export membrane protein; Region: SecD_SecF; cl14618 469008001386 Protein export membrane protein; Region: SecD_SecF; cl14618 469008001387 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 469008001388 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008001389 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008001390 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 469008001391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008001392 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 469008001393 hypothetical protein; Provisional; Region: PRK11281 469008001394 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 469008001395 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 469008001396 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008001397 hypothetical protein; Provisional; Region: PRK11038 469008001398 primosomal replication protein N''; Provisional; Region: PRK10093 469008001399 hypothetical protein; Provisional; Region: PRK10527 469008001400 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008001401 active site 469008001402 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 469008001403 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 469008001404 Walker A motif; other site 469008001405 ATP binding site [chemical binding]; other site 469008001406 Walker B motif; other site 469008001407 DNA polymerase III subunit delta'; Validated; Region: PRK08485 469008001408 arginine finger; other site 469008001409 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 469008001410 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 469008001411 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 469008001412 hypothetical protein; Validated; Region: PRK00153 469008001413 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 469008001414 RecR protein; Region: RecR; pfam02132 469008001415 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 469008001416 putative active site [active] 469008001417 putative metal-binding site [ion binding]; other site 469008001418 tetramer interface [polypeptide binding]; other site 469008001419 heat shock protein 90; Provisional; Region: PRK05218 469008001420 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 469008001421 ATP binding site [chemical binding]; other site 469008001422 Mg2+ binding site [ion binding]; other site 469008001423 G-X-G motif; other site 469008001424 adenylate kinase; Reviewed; Region: adk; PRK00279 469008001425 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 469008001426 AMP-binding site [chemical binding]; other site 469008001427 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 469008001428 ferrochelatase; Region: hemH; TIGR00109 469008001429 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 469008001430 C-terminal domain interface [polypeptide binding]; other site 469008001431 active site 469008001432 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 469008001433 active site 469008001434 N-terminal domain interface [polypeptide binding]; other site 469008001435 acetyl esterase; Provisional; Region: PRK10162 469008001436 inosine/guanosine kinase; Provisional; Region: PRK15074 469008001437 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008001438 putative cation:proton antiport protein; Provisional; Region: PRK10669 469008001439 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 469008001440 TrkA-N domain; Region: TrkA_N; pfam02254 469008001441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001442 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008001443 putative substrate translocation pore; other site 469008001444 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 469008001445 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 469008001446 active site 469008001447 metal binding site [ion binding]; metal-binding site 469008001448 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 469008001449 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 469008001450 putative deacylase active site [active] 469008001451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 469008001452 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469008001453 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 469008001454 non-specific DNA binding site [nucleotide binding]; other site 469008001455 salt bridge; other site 469008001456 sequence-specific DNA binding site [nucleotide binding]; other site 469008001457 copper exporting ATPase; Provisional; Region: copA; PRK10671 469008001458 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 469008001459 metal-binding site [ion binding] 469008001460 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 469008001461 metal-binding site [ion binding] 469008001462 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008001463 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 469008001464 motif II; other site 469008001465 glutaminase; Reviewed; Region: PRK12356 469008001466 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469008001467 amino acid transporter; Region: 2A0306; TIGR00909 469008001468 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 469008001469 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 469008001470 DNA binding residues [nucleotide binding] 469008001471 dimer interface [polypeptide binding]; other site 469008001472 copper binding site [ion binding]; other site 469008001473 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 469008001474 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 469008001475 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 469008001476 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 469008001477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008001478 Walker A/P-loop; other site 469008001479 ATP binding site [chemical binding]; other site 469008001480 Q-loop/lid; other site 469008001481 ABC transporter signature motif; other site 469008001482 Walker B; other site 469008001483 D-loop; other site 469008001484 H-loop/switch region; other site 469008001485 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 469008001486 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 469008001487 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 469008001488 oxidoreductase; Provisional; Region: PRK08017 469008001489 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 469008001490 NADP binding site [chemical binding]; other site 469008001491 active site 469008001492 steroid binding site; other site 469008001493 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 469008001494 active site 469008001495 catalytic triad [active] 469008001496 oxyanion hole [active] 469008001497 switch loop; other site 469008001498 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 469008001499 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008001500 Walker A/P-loop; other site 469008001501 ATP binding site [chemical binding]; other site 469008001502 Q-loop/lid; other site 469008001503 ABC transporter signature motif; other site 469008001504 Walker B; other site 469008001505 D-loop; other site 469008001506 H-loop/switch region; other site 469008001507 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 469008001508 FtsX-like permease family; Region: FtsX; pfam02687 469008001509 FtsX-like permease family; Region: FtsX; pfam02687 469008001510 PAAR motif; Region: PAAR_motif; cl15808 469008001511 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001512 RHS Repeat; Region: RHS_repeat; pfam05593 469008001513 RHS Repeat; Region: RHS_repeat; pfam05593 469008001514 RHS Repeat; Region: RHS_repeat; pfam05593 469008001515 RHS Repeat; Region: RHS_repeat; pfam05593 469008001516 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001517 RHS Repeat; Region: RHS_repeat; pfam05593 469008001518 RHS Repeat; Region: RHS_repeat; pfam05593 469008001519 RHS protein; Region: RHS; pfam03527 469008001520 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008001521 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 469008001522 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008001523 RHS protein; Region: RHS; pfam03527 469008001524 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008001525 hypothetical protein; Provisional; Region: PRK14710 469008001526 Winged helix-turn helix; Region: HTH_29; pfam13551 469008001527 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001528 Predicted ATPase [General function prediction only]; Region: COG2603 469008001529 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 469008001530 active site residue [active] 469008001531 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 469008001532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008001533 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 469008001534 dimerization interface [polypeptide binding]; other site 469008001535 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 469008001536 ureidoglycolate hydrolase; Provisional; Region: PRK03606 469008001537 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 469008001538 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008001539 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008001540 glyoxylate carboligase; Provisional; Region: PRK11269 469008001541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008001542 PYR/PP interface [polypeptide binding]; other site 469008001543 dimer interface [polypeptide binding]; other site 469008001544 TPP binding site [chemical binding]; other site 469008001545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008001546 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 469008001547 TPP-binding site [chemical binding]; other site 469008001548 hydroxypyruvate isomerase; Provisional; Region: PRK09997 469008001549 tartronate semialdehyde reductase; Provisional; Region: PRK15059 469008001550 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008001551 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 469008001552 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 469008001553 Na binding site [ion binding]; other site 469008001554 substrate binding site [chemical binding]; other site 469008001555 allantoinase; Provisional; Region: PRK08044 469008001556 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 469008001557 active site 469008001558 putative uracil/xanthine transporter; Provisional; Region: PRK11412 469008001559 glycerate kinase II; Provisional; Region: PRK09932 469008001560 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 469008001561 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 469008001562 Cupin domain; Region: Cupin_2; cl17218 469008001563 allantoate amidohydrolase; Region: AllC; TIGR03176 469008001564 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 469008001565 active site 469008001566 metal binding site [ion binding]; metal-binding site 469008001567 dimer interface [polypeptide binding]; other site 469008001568 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 469008001569 membrane protein FdrA; Validated; Region: PRK06091 469008001570 CoA binding domain; Region: CoA_binding; pfam02629 469008001571 CoA-ligase; Region: Ligase_CoA; pfam00549 469008001572 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008001573 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008001574 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 469008001575 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 469008001576 putative substrate binding site [chemical binding]; other site 469008001577 nucleotide binding site [chemical binding]; other site 469008001578 nucleotide binding site [chemical binding]; other site 469008001579 homodimer interface [polypeptide binding]; other site 469008001580 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 469008001581 ATP-grasp domain; Region: ATP-grasp; pfam02222 469008001582 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 469008001583 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 469008001584 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008001585 putative active site [active] 469008001586 putative metal binding site [ion binding]; other site 469008001587 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 469008001588 substrate binding site [chemical binding]; other site 469008001589 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 469008001590 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469008001591 active site 469008001592 HIGH motif; other site 469008001593 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469008001594 KMSKS motif; other site 469008001595 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 469008001596 tRNA binding surface [nucleotide binding]; other site 469008001597 anticodon binding site; other site 469008001598 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 469008001599 ribosome-associated protein; Provisional; Region: PRK11507 469008001600 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 469008001601 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 469008001602 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 469008001603 homodimer interface [polypeptide binding]; other site 469008001604 NADP binding site [chemical binding]; other site 469008001605 substrate binding site [chemical binding]; other site 469008001606 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 469008001607 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 469008001608 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008001609 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008001610 outer membrane usher protein FimD; Provisional; Region: PRK15198 469008001611 PapC N-terminal domain; Region: PapC_N; pfam13954 469008001612 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008001613 PapC C-terminal domain; Region: PapC_C; pfam13953 469008001614 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 469008001615 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 469008001616 transcriptional regulator FimZ; Provisional; Region: PRK09935 469008001617 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 469008001618 active site 469008001619 phosphorylation site [posttranslational modification] 469008001620 intermolecular recognition site; other site 469008001621 dimerization interface [polypeptide binding]; other site 469008001622 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 469008001623 DNA binding residues [nucleotide binding] 469008001624 dimerization interface [polypeptide binding]; other site 469008001625 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 469008001626 Int/Topo IB signature motif; other site 469008001627 Helix-turn-helix domain; Region: HTH_17; pfam12728 469008001628 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 469008001629 DksA-like zinc finger domain containing protein; Region: PHA00080 469008001630 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 469008001631 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 469008001632 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008001633 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 469008001634 catalytic residues [active] 469008001635 catalytic nucleophile [active] 469008001636 Recombinase; Region: Recombinase; pfam07508 469008001637 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 469008001638 Defensin propeptide; Region: Defensin_propep; pfam00879 469008001639 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 469008001640 substrate binding site [chemical binding]; other site 469008001641 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008001642 hypothetical protein; Provisional; Region: PRK09741 469008001643 prophage protein NinE; Provisional; Region: PRK09689 469008001644 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 469008001645 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 469008001646 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 469008001648 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001649 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001650 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001651 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001652 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001654 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001655 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001656 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008001657 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 469008001658 trimer interface [polypeptide binding]; other site 469008001659 eyelet of channel; other site 469008001660 Lysis protein S; Region: Lysis_S; pfam04971 469008001661 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 469008001662 catalytic residues [active] 469008001663 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008001664 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 469008001665 Bor protein; Region: Lambda_Bor; pfam06291 469008001666 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 469008001667 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 469008001668 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 469008001669 sensor kinase CusS; Provisional; Region: PRK09835 469008001670 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 469008001671 dimerization interface [polypeptide binding]; other site 469008001672 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 469008001673 dimer interface [polypeptide binding]; other site 469008001674 phosphorylation site [posttranslational modification] 469008001675 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 469008001676 ATP binding site [chemical binding]; other site 469008001677 Mg2+ binding site [ion binding]; other site 469008001678 G-X-G motif; other site 469008001679 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 469008001680 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 469008001681 active site 469008001682 phosphorylation site [posttranslational modification] 469008001683 intermolecular recognition site; other site 469008001684 dimerization interface [polypeptide binding]; other site 469008001685 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 469008001686 DNA binding site [nucleotide binding] 469008001687 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 469008001688 periplasmic copper-binding protein; Provisional; Region: PRK09838 469008001689 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 469008001690 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008001691 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 469008001692 phenylalanine transporter; Provisional; Region: PRK10249 469008001693 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 469008001694 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008001695 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 469008001696 dimer interface [polypeptide binding]; other site 469008001697 FMN binding site [chemical binding]; other site 469008001698 hypothetical protein; Provisional; Region: PRK10250 469008001699 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 469008001700 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 469008001701 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 469008001703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008001704 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001705 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001706 ribosomal slippage 469008001707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001708 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001709 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001710 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001711 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001713 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001714 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001716 Hok/gef family; Region: HOK_GEF; pfam01848 469008001717 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008001718 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008001719 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 469008001720 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 469008001721 outer membrane receptor FepA; Provisional; Region: PRK13524 469008001722 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 469008001723 N-terminal plug; other site 469008001724 ligand-binding site [chemical binding]; other site 469008001725 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 469008001726 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 469008001727 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 469008001728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 469008001729 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 469008001730 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 469008001731 acyl-activating enzyme (AAE) consensus motif; other site 469008001732 AMP binding site [chemical binding]; other site 469008001733 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 469008001734 LPS O-antigen length regulator; Provisional; Region: PRK10381 469008001735 Chain length determinant protein; Region: Wzz; pfam02706 469008001736 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008001737 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 469008001738 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008001739 Walker A/P-loop; other site 469008001740 ATP binding site [chemical binding]; other site 469008001741 Q-loop/lid; other site 469008001742 ABC transporter signature motif; other site 469008001743 Walker B; other site 469008001744 D-loop; other site 469008001745 H-loop/switch region; other site 469008001746 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008001747 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 469008001748 ABC-ATPase subunit interface; other site 469008001749 dimer interface [polypeptide binding]; other site 469008001750 putative PBP binding regions; other site 469008001751 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008001752 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 469008001753 ABC-ATPase subunit interface; other site 469008001754 dimer interface [polypeptide binding]; other site 469008001755 putative PBP binding regions; other site 469008001756 enterobactin exporter EntS; Provisional; Region: PRK10489 469008001757 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008001758 putative substrate translocation pore; other site 469008001759 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 469008001760 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 469008001761 siderophore binding site; other site 469008001762 isochorismate synthase EntC; Provisional; Region: PRK15016 469008001763 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 469008001764 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 469008001765 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 469008001766 acyl-activating enzyme (AAE) consensus motif; other site 469008001767 active site 469008001768 AMP binding site [chemical binding]; other site 469008001769 substrate binding site [chemical binding]; other site 469008001770 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 469008001771 hydrophobic substrate binding pocket; other site 469008001772 Isochorismatase family; Region: Isochorismatase; pfam00857 469008001773 active site 469008001774 conserved cis-peptide bond; other site 469008001775 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 469008001776 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 469008001777 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 469008001778 putative NAD(P) binding site [chemical binding]; other site 469008001779 active site 469008001780 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 469008001781 CoenzymeA binding site [chemical binding]; other site 469008001782 subunit interaction site [polypeptide binding]; other site 469008001783 PHB binding site; other site 469008001785 Uncharacterized small protein [Function unknown]; Region: COG2879 469008001786 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 469008001787 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 469008001788 putative active site [active] 469008001789 metal binding site [ion binding]; metal-binding site 469008001790 methionine aminotransferase; Validated; Region: PRK09082 469008001791 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 469008001792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008001793 homodimer interface [polypeptide binding]; other site 469008001794 catalytic residue [active] 469008001795 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 469008001796 ParB-like nuclease domain; Region: ParBc; pfam02195 469008001798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001799 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001800 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001801 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001802 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001804 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001805 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001806 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 469008001807 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 469008001808 dimerization domain [polypeptide binding]; other site 469008001809 dimer interface [polypeptide binding]; other site 469008001810 catalytic residues [active] 469008001811 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 469008001812 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 469008001813 dimer interface [polypeptide binding]; other site 469008001814 decamer (pentamer of dimers) interface [polypeptide binding]; other site 469008001815 catalytic triad [active] 469008001816 peroxidatic and resolving cysteines [active] 469008001817 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 469008001818 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 469008001819 catalytic residue [active] 469008001820 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 469008001821 catalytic residues [active] 469008001822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008001823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008001824 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 469008001825 Ligand Binding Site [chemical binding]; other site 469008001826 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 469008001827 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008001828 NAD binding site [chemical binding]; other site 469008001829 catalytic Zn binding site [ion binding]; other site 469008001830 structural Zn binding site [ion binding]; other site 469008001831 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 469008001832 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008001833 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 469008001834 B1 nucleotide binding pocket [chemical binding]; other site 469008001835 B2 nucleotide binding pocket [chemical binding]; other site 469008001836 CAS motifs; other site 469008001837 active site 469008001838 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008001839 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 469008001840 transmembrane helices; other site 469008001841 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 469008001842 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 469008001843 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 469008001844 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 469008001845 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 469008001846 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 469008001847 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 469008001848 putative active site [active] 469008001849 (T/H)XGH motif; other site 469008001850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001851 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001852 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001853 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001854 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008001855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008001856 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008001857 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008001858 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 469008001859 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 469008001860 putative active site [active] 469008001861 heme pocket [chemical binding]; other site 469008001862 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 469008001863 ATP binding site [chemical binding]; other site 469008001864 Mg2+ binding site [ion binding]; other site 469008001865 G-X-G motif; other site 469008001866 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 469008001867 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 469008001868 active site 469008001869 phosphorylation site [posttranslational modification] 469008001870 intermolecular recognition site; other site 469008001871 dimerization interface [polypeptide binding]; other site 469008001872 Transcriptional regulator; Region: CitT; pfam12431 469008001873 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 469008001874 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008001875 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 469008001876 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 469008001877 DNA-binding site [nucleotide binding]; DNA binding site 469008001878 RNA-binding motif; other site 469008001879 chromosome condensation membrane protein; Provisional; Region: PRK14196 469008001880 Predicted amidohydrolase [General function prediction only]; Region: COG0388 469008001881 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 469008001882 putative active site [active] 469008001883 catalytic triad [active] 469008001884 putative dimer interface [polypeptide binding]; other site 469008001885 predicted protein YbeM 469008001886 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 469008001887 lipoyl synthase; Provisional; Region: PRK05481 469008001888 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 469008001889 FeS/SAM binding site; other site 469008001890 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 469008001891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008001892 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 469008001893 substrate binding pocket [chemical binding]; other site 469008001894 dimerization interface [polypeptide binding]; other site 469008001895 lipoate-protein ligase B; Provisional; Region: PRK14342 469008001896 hypothetical protein; Provisional; Region: PRK04998 469008001897 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 469008001898 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008001899 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 469008001900 rare lipoprotein A; Provisional; Region: PRK10672 469008001901 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 469008001902 Sporulation related domain; Region: SPOR; pfam05036 469008001903 cell wall shape-determining protein; Provisional; Region: PRK10794 469008001904 penicillin-binding protein 2; Provisional; Region: PRK10795 469008001905 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469008001906 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469008001907 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 469008001908 ribosome-associated protein; Provisional; Region: PRK11538 469008001909 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 469008001910 catalytic core [active] 469008001911 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 469008001912 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 469008001913 active site 469008001914 (T/H)XGH motif; other site 469008001915 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 469008001916 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 469008001917 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 469008001918 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 469008001919 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469008001920 HIGH motif; other site 469008001921 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469008001922 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469008001923 active site 469008001924 KMSKS motif; other site 469008001925 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 469008001926 tRNA binding surface [nucleotide binding]; other site 469008001927 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469008001928 hypothetical protein; Provisional; Region: PRK11032 469008001929 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 469008001930 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008001931 Sel1-like repeats; Region: SEL1; smart00671 469008001932 Sel1-like repeats; Region: SEL1; smart00671 469008001933 Sel1-like repeats; Region: SEL1; smart00671 469008001934 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 469008001936 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 469008001937 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 469008001938 nucleotide binding site [chemical binding]; other site 469008001939 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008001940 SBD interface [polypeptide binding]; other site 469008001941 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 469008001942 active site 469008001943 tetramer interface [polypeptide binding]; other site 469008001945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008001946 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001947 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001948 putative transposase OrfB; Reviewed; Region: PHA02517 469008001949 HTH-like domain; Region: HTH_21; pfam13276 469008001950 Integrase core domain; Region: rve; pfam00665 469008001951 Integrase core domain; Region: rve_2; pfam13333 469008001952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008001953 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001954 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008001955 putative transposase OrfB; Reviewed; Region: PHA02517 469008001956 HTH-like domain; Region: HTH_21; pfam13276 469008001957 Integrase core domain; Region: rve; pfam00665 469008001958 Integrase core domain; Region: rve_2; pfam13333 469008001960 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008001961 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 469008001962 dimer interface [polypeptide binding]; other site 469008001963 conserved gate region; other site 469008001964 putative PBP binding loops; other site 469008001965 ABC-ATPase subunit interface; other site 469008001966 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008001967 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 469008001968 dimer interface [polypeptide binding]; other site 469008001969 conserved gate region; other site 469008001970 putative PBP binding loops; other site 469008001971 ABC-ATPase subunit interface; other site 469008001972 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 469008001973 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 469008001974 substrate binding pocket [chemical binding]; other site 469008001975 membrane-bound complex binding site; other site 469008001976 hinge residues; other site 469008001977 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 469008001978 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 469008001979 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 469008001980 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 469008001981 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 469008001982 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 469008001983 putative active site [active] 469008001984 catalytic triad [active] 469008001985 putative dimer interface [polypeptide binding]; other site 469008001986 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 469008001987 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 469008001988 Transporter associated domain; Region: CorC_HlyC; smart01091 469008001989 metal-binding heat shock protein; Provisional; Region: PRK00016 469008001990 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 469008001991 PhoH-like protein; Region: PhoH; pfam02562 469008001992 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 469008001993 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469008001994 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 469008001995 FeS/SAM binding site; other site 469008001996 TRAM domain; Region: TRAM; pfam01938 469008001997 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 469008001998 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469008001999 asparagine synthetase B; Provisional; Region: asnB; PRK09431 469008002000 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 469008002001 active site 469008002002 dimer interface [polypeptide binding]; other site 469008002003 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 469008002004 Ligand Binding Site [chemical binding]; other site 469008002005 Molecular Tunnel; other site 469008002006 UMP phosphatase; Provisional; Region: PRK10444 469008002007 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 469008002008 active site 469008002009 motif I; other site 469008002010 motif II; other site 469008002011 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 469008002012 MarR family; Region: MarR; pfam01047 469008002013 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008002014 ROK family; Region: ROK; pfam00480 469008002015 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 469008002016 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 469008002017 active site 469008002018 dimer interface [polypeptide binding]; other site 469008002019 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008002020 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 469008002021 active site 469008002022 trimer interface [polypeptide binding]; other site 469008002023 allosteric site; other site 469008002024 active site lid [active] 469008002025 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008002026 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 469008002027 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008002028 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 469008002029 active site turn [active] 469008002030 phosphorylation site [posttranslational modification] 469008002031 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 469008002032 HPr interaction site; other site 469008002033 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008002034 active site 469008002035 phosphorylation site [posttranslational modification] 469008002036 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 469008002037 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469008002038 active site 469008002039 HIGH motif; other site 469008002040 nucleotide binding site [chemical binding]; other site 469008002041 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 469008002042 KMSKS motif; other site 469008002043 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 469008002044 outer membrane porin, OprD family; Region: OprD; pfam03573 469008002045 YbfN-like lipoprotein; Region: YbfN; pfam13982 469008002046 ferric uptake regulator; Provisional; Region: fur; PRK09462 469008002047 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469008002048 metal binding site 2 [ion binding]; metal-binding site 469008002049 putative DNA binding helix; other site 469008002050 metal binding site 1 [ion binding]; metal-binding site 469008002051 dimer interface [polypeptide binding]; other site 469008002052 structural Zn2+ binding site [ion binding]; other site 469008002053 ryhB-regulated fur leader peptide; Provisional; Region: PRK14761 469008002054 flavodoxin FldA; Validated; Region: PRK09267 469008002055 LexA regulated protein; Provisional; Region: PRK11675 469008002056 acyl-CoA esterase; Provisional; Region: PRK10673 469008002057 PGAP1-like protein; Region: PGAP1; pfam07819 469008002058 replication initiation regulator SeqA; Provisional; Region: PRK11187 469008002059 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 469008002060 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 469008002061 active site 469008002062 substrate binding site [chemical binding]; other site 469008002063 metal binding site [ion binding]; metal-binding site 469008002064 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 469008002065 hypothetical protein; Provisional; Region: PRK11408 469008002066 putrescine transporter; Provisional; Region: potE; PRK10655 469008002067 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 469008002068 ornithine decarboxylase; Provisional; Region: PRK13578 469008002069 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008002070 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 469008002071 homodimer interface [polypeptide binding]; other site 469008002072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002073 catalytic residue [active] 469008002074 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008002075 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 469008002076 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 469008002077 active site 469008002078 phosphorylation site [posttranslational modification] 469008002079 intermolecular recognition site; other site 469008002080 dimerization interface [polypeptide binding]; other site 469008002081 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 469008002082 DNA binding site [nucleotide binding] 469008002083 sensor protein KdpD; Provisional; Region: PRK10490 469008002084 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 469008002085 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 469008002086 Ligand Binding Site [chemical binding]; other site 469008002087 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 469008002088 GAF domain; Region: GAF_3; pfam13492 469008002089 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 469008002090 dimer interface [polypeptide binding]; other site 469008002091 phosphorylation site [posttranslational modification] 469008002092 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 469008002093 ATP binding site [chemical binding]; other site 469008002094 Mg2+ binding site [ion binding]; other site 469008002095 G-X-G motif; other site 469008002096 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 469008002097 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 469008002098 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008002099 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 469008002100 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 469008002102 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008002103 RHS protein; Region: RHS; pfam03527 469008002104 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008002106 predicted ISAs1 family transposase, C-ter fragment 469008002107 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008002108 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008002109 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008002110 hypothetical protein; Provisional; Region: PRK10167 469008002111 Uncharacterized conserved protein [Function unknown]; Region: COG3272 469008002112 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 469008002113 DNA photolyase; Region: DNA_photolyase; pfam00875 469008002114 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008002115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002116 putative substrate translocation pore; other site 469008002117 POT family; Region: PTR2; pfam00854 469008002118 Uncharacterized conserved protein [Function unknown]; Region: COG0327 469008002119 metal-binding protein; Provisional; Region: PRK10799 469008002120 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 469008002121 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 469008002122 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 469008002123 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 469008002124 putative active site [active] 469008002125 endonuclease VIII; Provisional; Region: PRK10445 469008002126 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 469008002127 DNA binding site [nucleotide binding] 469008002128 catalytic residue [active] 469008002129 putative catalytic residues [active] 469008002130 H2TH interface [polypeptide binding]; other site 469008002131 intercalation triad [nucleotide binding]; other site 469008002132 substrate specificity determining residue; other site 469008002133 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 469008002134 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008002135 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 469008002136 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469008002137 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469008002138 Fimbrial protein; Region: Fimbrial; pfam00419 469008002139 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008002140 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008002141 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008002142 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008002143 PapC N-terminal domain; Region: PapC_N; pfam13954 469008002144 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008002145 PapC C-terminal domain; Region: PapC_C; pfam13953 469008002146 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008002147 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 469008002148 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 469008002149 dimer interface [polypeptide binding]; other site 469008002150 active site 469008002151 citrylCoA binding site [chemical binding]; other site 469008002152 NADH binding [chemical binding]; other site 469008002153 cationic pore residues; other site 469008002154 oxalacetate/citrate binding site [chemical binding]; other site 469008002155 coenzyme A binding site [chemical binding]; other site 469008002156 catalytic triad [active] 469008002157 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 469008002158 Iron-sulfur protein interface; other site 469008002159 proximal quinone binding site [chemical binding]; other site 469008002160 SdhD (CybS) interface [polypeptide binding]; other site 469008002161 proximal heme binding site [chemical binding]; other site 469008002162 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 469008002163 SdhC subunit interface [polypeptide binding]; other site 469008002164 proximal heme binding site [chemical binding]; other site 469008002165 cardiolipin binding site; other site 469008002166 Iron-sulfur protein interface; other site 469008002167 proximal quinone binding site [chemical binding]; other site 469008002168 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 469008002169 L-aspartate oxidase; Provisional; Region: PRK06175 469008002170 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008002171 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 469008002172 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 469008002173 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 469008002174 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 469008002175 TPP-binding site [chemical binding]; other site 469008002176 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 469008002177 dimer interface [polypeptide binding]; other site 469008002178 PYR/PP interface [polypeptide binding]; other site 469008002179 TPP binding site [chemical binding]; other site 469008002180 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 469008002181 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 469008002182 E3 interaction surface; other site 469008002183 lipoyl attachment site [posttranslational modification]; other site 469008002184 e3 binding domain; Region: E3_binding; pfam02817 469008002185 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 469008002186 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 469008002187 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 469008002188 CoA-ligase; Region: Ligase_CoA; pfam00549 469008002189 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 469008002190 CoA binding domain; Region: CoA_binding; smart00881 469008002191 CoA-ligase; Region: Ligase_CoA; pfam00549 469008002192 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 469008002193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008002194 DNA-binding site [nucleotide binding]; DNA binding site 469008002195 UTRA domain; Region: UTRA; pfam07702 469008002196 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 469008002197 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 469008002198 active site 469008002199 phosphorylation site [posttranslational modification] 469008002200 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 469008002201 active site 469008002202 P-loop; other site 469008002203 phosphorylation site [posttranslational modification] 469008002204 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008002205 alpha-mannosidase; Provisional; Region: PRK09819 469008002206 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 469008002207 active site 469008002208 metal binding site [ion binding]; metal-binding site 469008002209 catalytic site [active] 469008002210 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 469008002211 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 469008002212 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 469008002213 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 469008002214 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 469008002215 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 469008002216 hypothetical protein; Provisional; Region: PRK10588 469008002217 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 469008002218 active site 469008002219 colicin uptake protein TolQ; Provisional; Region: PRK10801 469008002220 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469008002221 colicin uptake protein TolR; Provisional; Region: PRK11024 469008002222 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 469008002223 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 469008002224 TolA C-terminal; Region: TolA; pfam06519 469008002225 translocation protein TolB; Provisional; Region: tolB; PRK03629 469008002226 TolB amino-terminal domain; Region: TolB_N; pfam04052 469008002227 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002228 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002229 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 469008002230 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 469008002231 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008002232 ligand binding site [chemical binding]; other site 469008002233 tol-pal system protein YbgF; Provisional; Region: PRK10803 469008002234 Tetratricopeptide repeat; Region: TPR_6; pfam13174 469008002235 Tetratricopeptide repeat; Region: TPR_6; pfam13174 469008002236 quinolinate synthetase; Provisional; Region: PRK09375 469008002237 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 469008002238 zinc transporter ZitB; Provisional; Region: PRK03557 469008002239 YbgS-like protein; Region: YbgS; pfam13985 469008002240 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 469008002241 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008002242 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 469008002243 catalytic core [active] 469008002244 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 469008002247 acyl-CoA thioesterase; Provisional; Region: PRK10531 469008002248 putative pectinesterase; Region: PLN02432; cl01911 469008002250 lac repressor; Reviewed; Region: lacI; PRK09526 469008002251 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008002252 DNA binding site [nucleotide binding] 469008002253 domain linker motif; other site 469008002254 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 469008002255 ligand binding site [chemical binding]; other site 469008002256 dimerization interface (open form) [polypeptide binding]; other site 469008002257 dimerization interface (closed form) [polypeptide binding]; other site 469008002258 T3/T7-like RNA polymerase; Region: PHA00452 469008002259 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 469008002260 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 469008002261 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 469008002262 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 469008002263 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 469008002264 Protein of unknown function (DUF1317); Region: DUF1317; pfam07026 469008002265 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 469008002266 phage recombination protein Bet; Region: bet_lambda; TIGR01913 469008002267 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 469008002268 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 469008002269 Lambda Phage CIII; Region: Lambda_CIII; pfam02061 469008002270 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 469008002271 Antirestriction protein Ral; Region: Ral; pfam11058 469008002272 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 469008002273 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 469008002274 non-specific DNA binding site [nucleotide binding]; other site 469008002275 salt bridge; other site 469008002276 sequence-specific DNA binding site [nucleotide binding]; other site 469008002277 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 469008002278 Catalytic site [active] 469008002280 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 469008002281 Replication protein P; Region: Phage_lambda_P; pfam06992 469008002284 Antitermination protein; Region: Antiterm; pfam03589 469008002285 Antitermination protein; Region: Antiterm; pfam03589 469008002286 phage holin, lambda family; Region: holin_lambda; TIGR01594 469008002287 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 469008002288 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008002289 catalytic residue [active] 469008002290 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008002291 Bor protein; Region: Lambda_Bor; pfam06291 469008002292 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 469008002293 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 469008002294 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 469008002295 gpW; Region: gpW; pfam02831 469008002296 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 469008002297 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 469008002298 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 469008002299 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 469008002300 tandem repeat interface [polypeptide binding]; other site 469008002301 oligomer interface [polypeptide binding]; other site 469008002302 active site residues [active] 469008002303 Peptidase family S49; Region: Peptidase_S49; pfam01343 469008002304 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 469008002305 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 469008002306 DNA packaging protein FI; Region: Packaging_FI; pfam14000 469008002307 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 469008002308 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 469008002309 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 469008002310 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 469008002311 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 469008002312 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 469008002313 Minor tail protein T; Region: Phage_tail_T; pfam06223 469008002314 Phage-related minor tail protein [Function unknown]; Region: COG5281 469008002315 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 469008002316 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 469008002317 Phage-related protein [Function unknown]; Region: COG4718 469008002318 Phage-related protein [Function unknown]; Region: gp18; COG4672 469008002319 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 469008002320 MPN+ (JAMM) motif; other site 469008002321 Zinc-binding site [ion binding]; other site 469008002322 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008002323 NlpC/P60 family; Region: NLPC_P60; cl17555 469008002324 Phage-related protein, tail component [Function unknown]; Region: COG4723 469008002325 Phage-related protein, tail component [Function unknown]; Region: COG4733 469008002326 Putative phage tail protein; Region: Phage-tail_3; pfam13550 469008002327 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 469008002328 Fibronectin type III protein; Region: DUF3672; pfam12421 469008002329 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 469008002330 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 469008002331 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 469008002332 potential protein location (enterobacteria phage lambda, hypothetical protein) that overlaps protein (enterobacteria phage lambda, Tail fiber protein) 469008002335 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 469008002336 substrate binding site [chemical binding]; other site 469008002337 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 469008002338 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 469008002339 inhibitor-cofactor binding pocket; inhibition site 469008002340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002341 catalytic residue [active] 469008002342 biotin synthase; Provisional; Region: PRK15108 469008002343 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 469008002344 FeS/SAM binding site; other site 469008002345 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 469008002346 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008002347 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 469008002348 substrate-cofactor binding pocket; other site 469008002349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002350 catalytic residue [active] 469008002351 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 469008002352 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 469008002353 S-adenosylmethionine binding site [chemical binding]; other site 469008002354 AAA domain; Region: AAA_26; pfam13500 469008002355 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 469008002356 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 469008002357 ADP binding site [chemical binding]; other site 469008002358 excinuclease ABC subunit B; Provisional; Region: PRK05298 469008002359 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 469008002360 ATP binding site [chemical binding]; other site 469008002361 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 469008002362 nucleotide binding region [chemical binding]; other site 469008002363 ATP-binding site [chemical binding]; other site 469008002364 Ultra-violet resistance protein B; Region: UvrB; pfam12344 469008002365 UvrB/uvrC motif; Region: UVR; pfam02151 469008002366 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 469008002367 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 469008002368 putative substrate binding pocket [chemical binding]; other site 469008002369 dimer interface [polypeptide binding]; other site 469008002370 phosphate binding site [ion binding]; other site 469008002371 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 469008002372 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 469008002373 FeS/SAM binding site; other site 469008002374 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 469008002375 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 469008002376 MPT binding site; other site 469008002377 trimer interface [polypeptide binding]; other site 469008002378 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 469008002379 trimer interface [polypeptide binding]; other site 469008002380 dimer interface [polypeptide binding]; other site 469008002381 putative active site [active] 469008002382 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 469008002383 MoaE interaction surface [polypeptide binding]; other site 469008002384 MoeB interaction surface [polypeptide binding]; other site 469008002385 thiocarboxylated glycine; other site 469008002386 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 469008002387 MoaE homodimer interface [polypeptide binding]; other site 469008002388 MoaD interaction [polypeptide binding]; other site 469008002389 active site residues [active] 469008002390 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008002391 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469008002392 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008002393 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469008002394 Predicted integral membrane protein [Function unknown]; Region: COG0392 469008002395 cardiolipin synthase 2; Provisional; Region: PRK11263 469008002396 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 469008002397 putative active site [active] 469008002398 catalytic site [active] 469008002399 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 469008002400 putative active site [active] 469008002401 catalytic site [active] 469008002402 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 469008002403 putative catalytic site [active] 469008002404 putative metal binding site [ion binding]; other site 469008002405 putative phosphate binding site [ion binding]; other site 469008002406 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 469008002407 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008002408 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008002409 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008002410 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 469008002411 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 469008002412 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008002413 Walker A/P-loop; other site 469008002414 ATP binding site [chemical binding]; other site 469008002415 Q-loop/lid; other site 469008002416 ABC transporter signature motif; other site 469008002417 Walker B; other site 469008002418 D-loop; other site 469008002419 H-loop/switch region; other site 469008002420 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 469008002421 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008002422 Walker A/P-loop; other site 469008002423 ATP binding site [chemical binding]; other site 469008002424 Q-loop/lid; other site 469008002425 ABC transporter signature motif; other site 469008002426 Walker B; other site 469008002427 D-loop; other site 469008002428 H-loop/switch region; other site 469008002429 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 469008002430 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008002431 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008002432 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 469008002433 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 469008002434 helicase 45; Provisional; Region: PTZ00424 469008002435 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 469008002436 ATP binding site [chemical binding]; other site 469008002437 Mg++ binding site [ion binding]; other site 469008002438 motif III; other site 469008002439 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 469008002440 nucleotide binding region [chemical binding]; other site 469008002441 ATP-binding site [chemical binding]; other site 469008002442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 469008002443 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 469008002444 DEAD_2; Region: DEAD_2; pfam06733 469008002445 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469008002446 glycosyl transferase family protein; Provisional; Region: PRK08136 469008002447 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008002448 putative dehydrogenase; Provisional; Region: PRK10098 469008002449 hypothetical protein; Provisional; Region: PRK10259 469008002450 hypothetical protein; Provisional; Region: PRK11019 469008002451 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 469008002452 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 469008002453 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 469008002454 N-terminal plug; other site 469008002455 ligand-binding site [chemical binding]; other site 469008002456 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008002457 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 469008002458 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 469008002459 putative mechanosensitive channel protein; Provisional; Region: PRK11465 469008002460 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008002461 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 469008002462 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008002463 Walker A/P-loop; other site 469008002464 ATP binding site [chemical binding]; other site 469008002465 Q-loop/lid; other site 469008002466 ABC transporter signature motif; other site 469008002467 Walker B; other site 469008002468 D-loop; other site 469008002469 H-loop/switch region; other site 469008002470 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008002471 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 469008002472 dimer interface [polypeptide binding]; other site 469008002473 conserved gate region; other site 469008002474 putative PBP binding loops; other site 469008002475 ABC-ATPase subunit interface; other site 469008002476 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 469008002477 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 469008002478 substrate binding pocket [chemical binding]; other site 469008002479 membrane-bound complex binding site; other site 469008002480 hinge residues; other site 469008002481 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 469008002482 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 469008002483 dimerization interface [polypeptide binding]; other site 469008002484 DPS ferroxidase diiron center [ion binding]; other site 469008002485 ion pore; other site 469008002486 threonine and homoserine efflux system; Provisional; Region: PRK10532 469008002487 EamA-like transporter family; Region: EamA; pfam00892 469008002488 outer membrane protein X; Provisional; Region: ompX; PRK09408 469008002489 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 469008002490 Sulfatase; Region: Sulfatase; pfam00884 469008002491 manganese transport regulator MntR; Provisional; Region: PRK11050 469008002492 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 469008002493 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 469008002494 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008002495 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 469008002496 transmembrane helices; other site 469008002497 L,D-transpeptidase; Provisional; Region: PRK10260 469008002498 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002499 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 469008002500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002501 Walker A/P-loop; other site 469008002502 ATP binding site [chemical binding]; other site 469008002503 Q-loop/lid; other site 469008002504 ABC transporter signature motif; other site 469008002505 Walker B; other site 469008002506 D-loop; other site 469008002507 H-loop/switch region; other site 469008002508 ABC transporter; Region: ABC_tran_2; pfam12848 469008002509 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008002510 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 469008002511 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 469008002512 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 469008002513 active site 469008002514 motif I; other site 469008002515 motif II; other site 469008002516 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 469008002517 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 469008002518 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 469008002519 dimer interface [polypeptide binding]; other site 469008002520 active site 469008002521 glycine loop; other site 469008002522 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 469008002523 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 469008002524 active site 469008002525 intersubunit interactions; other site 469008002526 catalytic residue [active] 469008002527 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 469008002528 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 469008002529 ATP binding site [chemical binding]; other site 469008002530 substrate interface [chemical binding]; other site 469008002531 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 469008002532 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 469008002533 dimer interface [polypeptide binding]; other site 469008002534 putative functional site; other site 469008002535 putative MPT binding site; other site 469008002536 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 469008002537 catalytic nucleophile [active] 469008002538 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 469008002539 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008002540 Walker A/P-loop; other site 469008002541 ATP binding site [chemical binding]; other site 469008002542 Q-loop/lid; other site 469008002543 ABC transporter signature motif; other site 469008002544 Walker B; other site 469008002545 D-loop; other site 469008002546 H-loop/switch region; other site 469008002547 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008002548 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008002549 Walker A/P-loop; other site 469008002550 ATP binding site [chemical binding]; other site 469008002551 Q-loop/lid; other site 469008002552 ABC transporter signature motif; other site 469008002553 Walker B; other site 469008002554 D-loop; other site 469008002555 H-loop/switch region; other site 469008002556 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008002557 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 469008002558 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 469008002559 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 469008002560 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 469008002561 dimer interface [polypeptide binding]; other site 469008002562 conserved gate region; other site 469008002563 putative PBP binding loops; other site 469008002564 ABC-ATPase subunit interface; other site 469008002565 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 469008002566 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008002567 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 469008002568 dimer interface [polypeptide binding]; other site 469008002569 conserved gate region; other site 469008002570 putative PBP binding loops; other site 469008002571 ABC-ATPase subunit interface; other site 469008002572 conserved inner membrane protein, interrupted by premature stop codon 469008002573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008002574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008002575 metal binding site [ion binding]; metal-binding site 469008002576 active site 469008002577 I-site; other site 469008002578 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 469008002579 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469008002580 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 469008002581 FeS/SAM binding site; other site 469008002582 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 469008002583 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 469008002584 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 469008002585 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 469008002586 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 469008002587 putative C-terminal domain interface [polypeptide binding]; other site 469008002588 putative GSH binding site (G-site) [chemical binding]; other site 469008002589 putative dimer interface [polypeptide binding]; other site 469008002590 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 469008002591 N-terminal domain interface [polypeptide binding]; other site 469008002592 dimer interface [polypeptide binding]; other site 469008002593 substrate binding pocket (H-site) [chemical binding]; other site 469008002594 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 469008002595 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008002596 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 469008002597 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 469008002598 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008002599 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008002600 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 469008002601 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008002602 active site 469008002603 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 469008002604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002605 putative substrate translocation pore; other site 469008002606 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 469008002607 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 469008002608 active site 469008002609 motif I; other site 469008002610 motif II; other site 469008002611 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 469008002612 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469008002613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002614 putative substrate translocation pore; other site 469008002615 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008002616 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 469008002617 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008002618 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 469008002619 integrase; Provisional; Region: int; PHA02601 469008002620 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 469008002621 active site 469008002622 DNA binding site [nucleotide binding] 469008002623 Int/Topo IB signature motif; other site 469008002624 Predicted transcriptional regulator [Transcription]; Region: COG2932 469008002625 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 469008002626 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 469008002627 Catalytic site [active] 469008002628 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 469008002629 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 469008002630 DinI-like family; Region: DinI; pfam06183 469008002631 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 469008002632 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 469008002633 putative active site [active] 469008002634 putative NTP binding site [chemical binding]; other site 469008002635 putative nucleic acid binding site [nucleotide binding]; other site 469008002636 portal vertex protein; Provisional; Region: Q; PHA02536 469008002637 Phage portal protein; Region: Phage_portal; pfam04860 469008002638 terminase ATPase subunit; Provisional; Region: P; PHA02535 469008002639 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 469008002640 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 469008002641 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 469008002642 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 469008002643 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 469008002644 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 469008002645 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 469008002646 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 469008002647 baseplate wedge subunit; Provisional; Region: W; PHA02516 469008002648 baseplate assembly protein; Provisional; Region: J; PHA02568 469008002649 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 469008002650 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 469008002651 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 469008002652 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 469008002653 Phage Tail Collar Domain; Region: Collar; pfam07484 469008002654 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008002655 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 469008002656 catalytic residues [active] 469008002657 catalytic nucleophile [active] 469008002658 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 469008002659 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 469008002660 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 469008002661 putative transporter; Provisional; Region: PRK04972 469008002662 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469008002663 TrkA-C domain; Region: TrkA_C; pfam02080 469008002664 TrkA-C domain; Region: TrkA_C; pfam02080 469008002665 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 469008002666 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 469008002667 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 469008002668 GSH binding site [chemical binding]; other site 469008002669 catalytic residues [active] 469008002670 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 469008002671 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 469008002672 dimer interface [polypeptide binding]; other site 469008002673 FMN binding site [chemical binding]; other site 469008002674 NADPH bind site [chemical binding]; other site 469008002675 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 469008002676 RimK-like ATP-grasp domain; Region: RimK; pfam08443 469008002677 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 469008002678 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 469008002679 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 469008002680 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 469008002681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002682 Walker A/P-loop; other site 469008002683 ATP binding site [chemical binding]; other site 469008002684 Q-loop/lid; other site 469008002685 ABC transporter signature motif; other site 469008002686 Walker B; other site 469008002687 D-loop; other site 469008002688 H-loop/switch region; other site 469008002689 TOBE domain; Region: TOBE_2; pfam08402 469008002690 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469008002691 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 469008002692 dimer interface [polypeptide binding]; other site 469008002693 conserved gate region; other site 469008002694 putative PBP binding loops; other site 469008002695 ABC-ATPase subunit interface; other site 469008002696 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008002697 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 469008002698 dimer interface [polypeptide binding]; other site 469008002699 conserved gate region; other site 469008002700 putative PBP binding loops; other site 469008002701 ABC-ATPase subunit interface; other site 469008002702 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 469008002703 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 469008002704 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 469008002705 S-adenosylmethionine binding site [chemical binding]; other site 469008002706 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 469008002707 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 469008002708 substrate binding pocket [chemical binding]; other site 469008002709 membrane-bound complex binding site; other site 469008002710 hinge residues; other site 469008002711 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 469008002712 dimer interface [polypeptide binding]; other site 469008002713 conserved gate region; other site 469008002714 putative PBP binding loops; other site 469008002715 ABC-ATPase subunit interface; other site 469008002716 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008002717 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 469008002718 dimer interface [polypeptide binding]; other site 469008002719 conserved gate region; other site 469008002720 putative PBP binding loops; other site 469008002721 ABC-ATPase subunit interface; other site 469008002722 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 469008002723 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 469008002724 substrate binding pocket [chemical binding]; other site 469008002725 membrane-bound complex binding site; other site 469008002726 hinge residues; other site 469008002727 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 469008002728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002729 Walker A/P-loop; other site 469008002730 ATP binding site [chemical binding]; other site 469008002731 Q-loop/lid; other site 469008002732 ABC transporter signature motif; other site 469008002733 Walker B; other site 469008002734 D-loop; other site 469008002735 H-loop/switch region; other site 469008002736 putative lipoprotein; Provisional; Region: PRK10533 469008002737 hypothetical protein; Provisional; Region: PRK02877 469008002738 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469008002739 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 469008002740 amidase catalytic site [active] 469008002741 Zn binding residues [ion binding]; other site 469008002742 substrate binding site [chemical binding]; other site 469008002743 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008002744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008002745 NAD(P) binding site [chemical binding]; other site 469008002746 active site 469008002747 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 469008002748 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 469008002749 putative NAD(P) binding site [chemical binding]; other site 469008002750 putative active site [active] 469008002751 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 469008002752 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 469008002753 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 469008002754 tetramer interface [polypeptide binding]; other site 469008002755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002756 catalytic residue [active] 469008002757 pyruvate dehydrogenase; Provisional; Region: PRK09124 469008002758 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 469008002759 PYR/PP interface [polypeptide binding]; other site 469008002760 dimer interface [polypeptide binding]; other site 469008002761 tetramer interface [polypeptide binding]; other site 469008002762 TPP binding site [chemical binding]; other site 469008002763 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008002764 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 469008002765 TPP-binding site [chemical binding]; other site 469008002766 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 469008002767 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 469008002768 FAD binding pocket [chemical binding]; other site 469008002769 FAD binding motif [chemical binding]; other site 469008002770 phosphate binding motif [ion binding]; other site 469008002771 beta-alpha-beta structure motif; other site 469008002772 NAD binding pocket [chemical binding]; other site 469008002773 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 469008002774 catalytic loop [active] 469008002775 iron binding site [ion binding]; other site 469008002776 hybrid cluster protein; Provisional; Region: PRK05290 469008002777 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 469008002778 ACS interaction site; other site 469008002779 CODH interaction site; other site 469008002780 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 469008002781 hybrid metal cluster; other site 469008002782 Predicted membrane protein [Function unknown]; Region: COG2431 469008002783 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 469008002784 amphipathic channel; other site 469008002785 Asn-Pro-Ala signature motifs; other site 469008002786 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 469008002787 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 469008002788 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 469008002789 putative active site [active] 469008002790 putative metal-binding site [ion binding]; other site 469008002791 Protein of unknown function (DUF535); Region: DUF535; pfam04393 469008002792 macrolide transporter subunit MacA; Provisional; Region: PRK11578 469008002793 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008002794 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008002795 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 469008002796 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008002797 Walker A/P-loop; other site 469008002798 ATP binding site [chemical binding]; other site 469008002799 Q-loop/lid; other site 469008002800 ABC transporter signature motif; other site 469008002801 Walker B; other site 469008002802 D-loop; other site 469008002803 H-loop/switch region; other site 469008002804 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008002805 FtsX-like permease family; Region: FtsX; pfam02687 469008002806 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 469008002807 DNA-binding site [nucleotide binding]; DNA binding site 469008002808 RNA-binding motif; other site 469008002809 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 469008002810 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 469008002811 Clp amino terminal domain; Region: Clp_N; pfam02861 469008002812 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 469008002813 Walker A motif; other site 469008002814 ATP binding site [chemical binding]; other site 469008002815 Walker B motif; other site 469008002816 arginine finger; other site 469008002817 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 469008002818 Walker A motif; other site 469008002819 ATP binding site [chemical binding]; other site 469008002820 Walker B motif; other site 469008002821 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 469008002822 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 469008002823 rRNA binding site [nucleotide binding]; other site 469008002824 predicted 30S ribosome binding site; other site 469008002825 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 469008002826 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 469008002827 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002828 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 469008002829 Walker A/P-loop; other site 469008002830 ATP binding site [chemical binding]; other site 469008002831 Q-loop/lid; other site 469008002832 ABC transporter signature motif; other site 469008002833 Walker B; other site 469008002834 D-loop; other site 469008002835 H-loop/switch region; other site 469008002836 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 469008002837 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008002839 Walker A/P-loop; other site 469008002840 ATP binding site [chemical binding]; other site 469008002841 Q-loop/lid; other site 469008002842 ABC transporter signature motif; other site 469008002843 Walker B; other site 469008002844 D-loop; other site 469008002845 H-loop/switch region; other site 469008002846 thioredoxin reductase; Provisional; Region: PRK10262 469008002847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008002848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008002849 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 469008002850 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 469008002851 putative DNA binding site [nucleotide binding]; other site 469008002852 putative Zn2+ binding site [ion binding]; other site 469008002853 AsnC family; Region: AsnC_trans_reg; pfam01037 469008002854 DNA translocase FtsK; Provisional; Region: PRK10263 469008002855 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 469008002856 DNA translocase FtsK; Provisional; Region: PRK10263 469008002857 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 469008002858 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 469008002859 periplasmic chaperone LolA; Region: lolA; TIGR00547 469008002860 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 469008002861 recombination factor protein RarA; Reviewed; Region: PRK13342 469008002862 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 469008002863 Walker A motif; other site 469008002864 ATP binding site [chemical binding]; other site 469008002865 Walker B motif; other site 469008002866 arginine finger; other site 469008002867 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 469008002868 seryl-tRNA synthetase; Provisional; Region: PRK05431 469008002869 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 469008002870 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 469008002871 dimer interface [polypeptide binding]; other site 469008002872 active site 469008002873 motif 1; other site 469008002874 motif 2; other site 469008002875 motif 3; other site 469008002876 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 469008002877 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008002878 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 469008002879 putative [Fe4-S4] binding site [ion binding]; other site 469008002880 putative molybdopterin cofactor binding site [chemical binding]; other site 469008002881 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 469008002882 putative molybdopterin cofactor binding site; other site 469008002883 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 469008002884 4Fe-4S binding domain; Region: Fer4; pfam00037 469008002885 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 469008002886 Isochorismatase family; Region: Isochorismatase; pfam00857 469008002887 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 469008002888 catalytic triad [active] 469008002889 dimer interface [polypeptide binding]; other site 469008002890 conserved cis-peptide bond; other site 469008002891 putative MFS family transporter protein; Provisional; Region: PRK03633 469008002892 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008002893 putative substrate translocation pore; other site 469008002894 Amino acid permease; Region: AA_permease_2; pfam13520 469008002895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008002896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008002897 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 469008002898 putative effector binding pocket; other site 469008002899 putative dimerization interface [polypeptide binding]; other site 469008002900 hypothetical protein; Provisional; Region: PRK09739 469008002901 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008002902 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 469008002903 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 469008002904 FeS/SAM binding site; other site 469008002905 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 469008002906 Pyruvate formate lyase 1; Region: PFL1; cd01678 469008002907 coenzyme A binding site [chemical binding]; other site 469008002908 active site 469008002909 catalytic residues [active] 469008002910 glycine loop; other site 469008002911 formate transporter; Provisional; Region: PRK10805 469008002912 uncharacterized domain; Region: TIGR00702 469008002913 YcaO-like family; Region: YcaO; pfam02624 469008002914 Predicted membrane protein [Function unknown]; Region: COG2323 469008002915 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 469008002916 homodimer interface [polypeptide binding]; other site 469008002917 substrate-cofactor binding pocket; other site 469008002918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002919 catalytic residue [active] 469008002920 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 469008002921 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 469008002922 hinge; other site 469008002923 active site 469008002924 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 469008002925 cytidylate kinase; Provisional; Region: cmk; PRK00023 469008002926 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 469008002927 CMP-binding site; other site 469008002928 The sites determining sugar specificity; other site 469008002929 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 469008002930 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 469008002931 RNA binding site [nucleotide binding]; other site 469008002932 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 469008002933 RNA binding site [nucleotide binding]; other site 469008002934 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 469008002935 RNA binding site [nucleotide binding]; other site 469008002936 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 469008002937 RNA binding site [nucleotide binding]; other site 469008002938 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 469008002939 RNA binding site [nucleotide binding]; other site 469008002940 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 469008002941 IHF dimer interface [polypeptide binding]; other site 469008002942 IHF - DNA interface [nucleotide binding]; other site 469008002943 ComEC family competence protein; Provisional; Region: PRK11539 469008002944 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 469008002945 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 469008002946 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 469008002947 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 469008002948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469008002949 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469008002950 Walker A/P-loop; other site 469008002951 ATP binding site [chemical binding]; other site 469008002952 Q-loop/lid; other site 469008002953 ABC transporter signature motif; other site 469008002954 Walker B; other site 469008002955 D-loop; other site 469008002956 H-loop/switch region; other site 469008002957 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 469008002958 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 469008002959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 469008002960 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 469008002961 hypothetical protein; Provisional; Region: PRK11827 469008002962 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469008002963 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469008002964 Ligand binding site; other site 469008002965 oligomer interface; other site 469008002966 hypothetical protein; Provisional; Region: PRK10593 469008002967 Uncharacterized conserved protein [Function unknown]; Region: COG1434 469008002968 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 469008002969 putative active site [active] 469008002970 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008002971 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 469008002972 S-adenosylmethionine binding site [chemical binding]; other site 469008002973 condesin subunit F; Provisional; Region: PRK05260 469008002974 condesin subunit E; Provisional; Region: PRK05256 469008002975 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 469008002976 MukB N-terminal; Region: MukB; pfam04310 469008002977 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 469008002978 murein L,D-transpeptidase; Provisional; Region: PRK10594 469008002979 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469008002980 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002981 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008002982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 469008002983 Peptidase M15; Region: Peptidase_M15_3; cl01194 469008002984 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469008002985 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 469008002986 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 469008002987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008002988 homodimer interface [polypeptide binding]; other site 469008002989 catalytic residue [active] 469008002990 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008002991 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 469008002992 trimer interface [polypeptide binding]; other site 469008002993 eyelet of channel; other site 469008002994 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 469008002995 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 469008002996 putative dimer interface [polypeptide binding]; other site 469008002997 putative anticodon binding site; other site 469008002998 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 469008002999 homodimer interface [polypeptide binding]; other site 469008003000 motif 1; other site 469008003001 motif 2; other site 469008003002 active site 469008003003 motif 3; other site 469008003004 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 469008003005 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 469008003006 active site 469008003007 aminopeptidase N; Provisional; Region: pepN; PRK14015 469008003008 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 469008003009 active site 469008003010 Zn binding site [ion binding]; other site 469008003011 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 469008003012 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469008003013 Walker A/P-loop; other site 469008003014 ATP binding site [chemical binding]; other site 469008003015 Q-loop/lid; other site 469008003016 ABC transporter signature motif; other site 469008003017 Walker B; other site 469008003018 D-loop; other site 469008003019 H-loop/switch region; other site 469008003020 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008003021 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 469008003022 dimer interface [polypeptide binding]; other site 469008003023 conserved gate region; other site 469008003024 putative PBP binding loops; other site 469008003025 ABC-ATPase subunit interface; other site 469008003026 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 469008003027 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 469008003028 active site 469008003029 dimer interface [polypeptide binding]; other site 469008003030 non-prolyl cis peptide bond; other site 469008003031 insertion regions; other site 469008003032 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 469008003033 substrate binding pocket [chemical binding]; other site 469008003034 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 469008003035 membrane-bound complex binding site; other site 469008003036 hinge residues; other site 469008003037 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 469008003038 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008003039 Fimbrial protein; Region: Fimbrial; cl01416 469008003040 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008003041 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008003042 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008003043 outer membrane usher protein; Provisional; Region: PRK15193 469008003044 PapC N-terminal domain; Region: PapC_N; pfam13954 469008003045 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008003046 PapC C-terminal domain; Region: PapC_C; pfam13953 469008003047 Fimbrial protein; Region: Fimbrial; cl01416 469008003048 Fimbrial protein; Region: Fimbrial; cl01416 469008003049 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008003050 putativi pili assembly chaperone; Provisional; Region: PRK11385 469008003051 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008003052 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008003053 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 469008003054 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 469008003055 quinone interaction residues [chemical binding]; other site 469008003056 active site 469008003057 catalytic residues [active] 469008003058 FMN binding site [chemical binding]; other site 469008003059 substrate binding site [chemical binding]; other site 469008003060 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 469008003061 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 469008003062 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 469008003063 MOSC domain; Region: MOSC; pfam03473 469008003064 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 469008003065 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008003066 catalytic loop [active] 469008003067 iron binding site [ion binding]; other site 469008003068 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 469008003069 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 469008003070 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 469008003071 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 469008003072 S-adenosylmethionine binding site [chemical binding]; other site 469008003073 ABC transporter ATPase component; Reviewed; Region: PRK11147 469008003074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003076 Walker A/P-loop; other site 469008003077 Walker A/P-loop; other site 469008003078 ATP binding site [chemical binding]; other site 469008003079 ATP binding site [chemical binding]; other site 469008003080 Q-loop/lid; other site 469008003081 Q-loop/lid; other site 469008003082 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008003083 ABC transporter signature motif; other site 469008003084 Walker B; other site 469008003085 D-loop; other site 469008003086 ABC transporter; Region: ABC_tran_2; pfam12848 469008003087 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008003088 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 469008003089 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008003090 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008003091 paraquat-inducible protein B; Provisional; Region: PRK10807 469008003092 mce related protein; Region: MCE; pfam02470 469008003093 mce related protein; Region: MCE; pfam02470 469008003094 mce related protein; Region: MCE; pfam02470 469008003095 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 469008003096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 469008003097 Protein of unknown function (DUF330); Region: DUF330; pfam03886 469008003098 ribosome modulation factor; Provisional; Region: PRK14563 469008003099 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 469008003100 active site 1 [active] 469008003101 dimer interface [polypeptide binding]; other site 469008003102 active site 2 [active] 469008003103 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 469008003104 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469008003105 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 469008003106 outer membrane protein A; Reviewed; Region: PRK10808 469008003107 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 469008003108 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008003109 ligand binding site [chemical binding]; other site 469008003110 cell division inhibitor SulA; Region: sula; TIGR00623 469008003111 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 469008003112 TfoX C-terminal domain; Region: TfoX_C; pfam04994 469008003113 TIGR01666 family membrane protein; Region: YCCS 469008003114 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 469008003115 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008003116 Predicted membrane protein [Function unknown]; Region: COG3304 469008003117 Domain of unknown function (DUF307); Region: DUF307; pfam03733 469008003118 Domain of unknown function (DUF307); Region: DUF307; pfam03733 469008003119 DNA helicase IV; Provisional; Region: helD; PRK11054 469008003120 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 469008003121 Part of AAA domain; Region: AAA_19; pfam13245 469008003122 Family description; Region: UvrD_C_2; pfam13538 469008003123 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 469008003124 active site 469008003125 dimer interfaces [polypeptide binding]; other site 469008003126 catalytic residues [active] 469008003127 hypothetical protein; Provisional; Region: PRK03641 469008003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 469008003129 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 469008003130 heat shock protein HspQ; Provisional; Region: PRK14129 469008003131 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 469008003132 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 469008003133 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 469008003134 putative RNA binding site [nucleotide binding]; other site 469008003135 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 469008003136 S-adenosylmethionine binding site [chemical binding]; other site 469008003137 Acylphosphatase; Region: Acylphosphatase; cl00551 469008003138 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 469008003139 sulfur transfer protein TusE; Provisional; Region: PRK11508 469008003140 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469008003141 YccA-like proteins; Region: YccA_like; cd10433 469008003142 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 469008003143 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008003144 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 469008003145 hydrogenase 1 large subunit; Provisional; Region: PRK10170 469008003146 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 469008003147 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 469008003148 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008003149 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 469008003150 putative substrate-binding site; other site 469008003151 nickel binding site [ion binding]; other site 469008003152 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 469008003153 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 469008003154 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 469008003155 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 469008003156 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 469008003157 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 469008003158 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 469008003159 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 469008003160 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 469008003161 catalytic core [active] 469008003162 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 469008003163 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 469008003164 Chain length determinant protein; Region: Wzz; pfam02706 469008003165 Chain length determinant protein; Region: Wzz; cl15801 469008003166 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008003167 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 469008003168 Nucleotide binding site [chemical binding]; other site 469008003169 Low molecular weight phosphatase family; Region: LMWPc; cd00115 469008003170 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 469008003171 active site 469008003172 polysaccharide export protein Wza; Provisional; Region: PRK15078 469008003173 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008003174 SLBB domain; Region: SLBB; pfam10531 469008003175 SLBB domain; Region: SLBB; pfam10531 469008003176 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 469008003177 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 469008003178 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 469008003179 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 469008003180 DNA-binding site [nucleotide binding]; DNA binding site 469008003181 RNA-binding motif; other site 469008003182 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 469008003183 DNA-binding site [nucleotide binding]; DNA binding site 469008003184 RNA-binding motif; other site 469008003185 cold shock gene; Provisional; Region: PRK09891 469008003186 GnsA/GnsB family; Region: GnsAB; pfam08178 469008003187 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 469008003188 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008003189 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008003190 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 469008003191 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 469008003192 HAMP domain; Region: HAMP; pfam00672 469008003193 dimerization interface [polypeptide binding]; other site 469008003194 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 469008003195 dimer interface [polypeptide binding]; other site 469008003196 phosphorylation site [posttranslational modification] 469008003197 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 469008003198 ATP binding site [chemical binding]; other site 469008003199 Mg2+ binding site [ion binding]; other site 469008003200 G-X-G motif; other site 469008003201 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 469008003202 active site 469008003203 phosphorylation site [posttranslational modification] 469008003204 intermolecular recognition site; other site 469008003205 dimerization interface [polypeptide binding]; other site 469008003206 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 469008003207 putative binding surface; other site 469008003208 active site 469008003209 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 469008003210 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 469008003211 putative ligand binding site [chemical binding]; other site 469008003212 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 469008003213 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 469008003214 active site 469008003215 phosphorylation site [posttranslational modification] 469008003216 intermolecular recognition site; other site 469008003217 dimerization interface [polypeptide binding]; other site 469008003218 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 469008003219 DNA binding site [nucleotide binding] 469008003220 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 469008003221 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 469008003222 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 469008003223 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 469008003224 molybdopterin cofactor binding site [chemical binding]; other site 469008003225 substrate binding site [chemical binding]; other site 469008003226 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 469008003227 molybdopterin cofactor binding site; other site 469008003228 chaperone protein TorD; Validated; Region: torD; PRK04976 469008003229 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 469008003230 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 469008003231 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 469008003232 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 469008003233 HSP70 interaction site [polypeptide binding]; other site 469008003234 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469008003235 substrate binding site [polypeptide binding]; other site 469008003236 dimer interface [polypeptide binding]; other site 469008003237 hypothetical protein; Provisional; Region: PRK09784 469008003238 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 469008003239 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 469008003240 catalytic core [active] 469008003241 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 469008003242 hypothetical protein; Provisional; Region: PRK10174 469008003243 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 469008003244 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008003245 General stress protein [General function prediction only]; Region: GsiB; COG3729 469008003246 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 469008003247 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 469008003248 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 469008003249 putative FMN binding site [chemical binding]; other site 469008003250 pyrimidine utilization protein D; Region: RutD; TIGR03611 469008003251 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 469008003252 homotrimer interaction site [polypeptide binding]; other site 469008003253 putative active site [active] 469008003254 Isochorismatase family; Region: Isochorismatase; pfam00857 469008003255 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 469008003256 catalytic triad [active] 469008003257 conserved cis-peptide bond; other site 469008003258 pyrimidine utilization protein A; Region: RutA; TIGR03612 469008003259 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 469008003260 active site 469008003261 dimer interface [polypeptide binding]; other site 469008003262 non-prolyl cis peptide bond; other site 469008003263 insertion regions; other site 469008003264 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469008003265 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 469008003266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008003267 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 469008003268 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 469008003269 Predicted transcriptional regulator [Transcription]; Region: COG3905 469008003270 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 469008003271 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 469008003272 Glutamate binding site [chemical binding]; other site 469008003273 NAD binding site [chemical binding]; other site 469008003274 catalytic residues [active] 469008003275 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 469008003276 Na binding site [ion binding]; other site 469008003277 FTR1 family protein; Region: TIGR00145 469008003278 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 469008003279 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 469008003280 Imelysin; Region: Peptidase_M75; pfam09375 469008003281 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 469008003282 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 469008003283 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 469008003284 hypothetical protein; Provisional; Region: PRK10536 469008003285 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 469008003286 N-glycosyltransferase; Provisional; Region: PRK11204 469008003287 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 469008003288 DXD motif; other site 469008003289 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 469008003290 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 469008003291 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 469008003292 putative active site [active] 469008003293 putative metal binding site [ion binding]; other site 469008003294 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 469008003295 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008003296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008003297 metal binding site [ion binding]; metal-binding site 469008003298 active site 469008003299 I-site; other site 469008003300 Transposase; Region: HTH_Tnp_1; pfam01527 469008003301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008003302 putative transposase OrfB; Reviewed; Region: PHA02517 469008003303 HTH-like domain; Region: HTH_21; pfam13276 469008003304 Integrase core domain; Region: rve; pfam00665 469008003305 Integrase core domain; Region: rve_2; pfam13333 469008003306 putative transposase OrfB; Reviewed; Region: PHA02517 469008003307 HTH-like domain; Region: HTH_21; pfam13276 469008003308 Integrase core domain; Region: rve; pfam00665 469008003309 Integrase core domain; Region: rve_2; pfam13333 469008003310 Transposase; Region: HTH_Tnp_1; cl17663 469008003311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008003312 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 469008003313 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 469008003314 putative ligand binding site [chemical binding]; other site 469008003315 NAD binding site [chemical binding]; other site 469008003316 dimerization interface [polypeptide binding]; other site 469008003317 catalytic site [active] 469008003318 putative hydrolase; Validated; Region: PRK09248 469008003319 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 469008003320 active site 469008003321 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 469008003322 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 469008003323 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 469008003324 curli assembly protein CsgF; Provisional; Region: PRK10050 469008003325 curli assembly protein CsgE; Provisional; Region: PRK10386 469008003326 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 469008003327 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 469008003328 DNA binding residues [nucleotide binding] 469008003329 dimerization interface [polypeptide binding]; other site 469008003330 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 469008003331 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003332 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003333 major curlin subunit; Provisional; Region: csgA; PRK10051 469008003334 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003335 Curlin associated repeat; Region: Curlin_rpt; pfam07012 469008003336 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 469008003337 Fimbrial protein; Region: Fimbrial; cl01416 469008003338 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 469008003339 putative ADP-ribose binding site [chemical binding]; other site 469008003340 putative active site [active] 469008003341 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 469008003342 PLD-like domain; Region: PLDc_2; pfam13091 469008003343 putative active site [active] 469008003344 catalytic site [active] 469008003345 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 469008003346 PLD-like domain; Region: PLDc_2; pfam13091 469008003347 putative active site [active] 469008003348 catalytic site [active] 469008003349 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 469008003350 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008003351 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 469008003352 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 469008003353 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 469008003354 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 469008003355 Ligand binding site; other site 469008003356 DXD motif; other site 469008003357 lipoprotein; Provisional; Region: PRK10175 469008003358 secY/secA suppressor protein; Provisional; Region: PRK11467 469008003359 drug efflux system protein MdtG; Provisional; Region: PRK09874 469008003360 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008003361 putative substrate translocation pore; other site 469008003362 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008003363 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008003364 putative acyl-acceptor binding pocket; other site 469008003365 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 469008003366 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 469008003367 active site residue [active] 469008003368 hypothetical protein; Provisional; Region: PRK03757 469008003369 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 469008003370 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 469008003371 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 469008003372 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008003373 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 469008003374 DNA damage-inducible protein I; Provisional; Region: PRK10597 469008003375 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 469008003376 active site 469008003377 substrate binding pocket [chemical binding]; other site 469008003378 dimer interface [polypeptide binding]; other site 469008003379 lipoprotein; Provisional; Region: PRK10598 469008003380 glutaredoxin 2; Provisional; Region: PRK10387 469008003381 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 469008003382 C-terminal domain interface [polypeptide binding]; other site 469008003383 GSH binding site (G-site) [chemical binding]; other site 469008003384 catalytic residues [active] 469008003385 putative dimer interface [polypeptide binding]; other site 469008003386 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 469008003387 N-terminal domain interface [polypeptide binding]; other site 469008003388 multidrug resistance protein MdtH; Provisional; Region: PRK11646 469008003389 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008003390 putative substrate translocation pore; other site 469008003391 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 469008003392 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 469008003393 hypothetical protein; Provisional; Region: PRK11239 469008003394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 469008003395 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008003396 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008003397 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008003398 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 469008003399 MviN-like protein; Region: MVIN; pfam03023 469008003400 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 469008003401 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 469008003402 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 469008003403 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 469008003404 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 469008003405 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 469008003406 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 469008003407 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 469008003408 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003410 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 469008003411 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 469008003412 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 469008003413 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 469008003414 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003415 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 469008003416 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003417 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 469008003418 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003419 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 469008003420 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 469008003421 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003422 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 469008003423 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 469008003424 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 469008003425 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 469008003426 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 469008003427 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 469008003428 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 469008003429 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 469008003430 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 469008003431 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 469008003432 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 469008003433 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 469008003434 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 469008003435 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 469008003436 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 469008003437 homodimer interface [polypeptide binding]; other site 469008003438 oligonucleotide binding site [chemical binding]; other site 469008003439 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 469008003440 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 469008003441 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 469008003442 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 469008003443 RNA binding surface [nucleotide binding]; other site 469008003444 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008003445 active site 469008003446 Maf-like protein; Region: Maf; pfam02545 469008003447 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 469008003448 active site 469008003449 dimer interface [polypeptide binding]; other site 469008003450 hypothetical protein; Provisional; Region: PRK11193 469008003451 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 469008003452 putative phosphate acyltransferase; Provisional; Region: PRK05331 469008003453 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 469008003454 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 469008003455 dimer interface [polypeptide binding]; other site 469008003456 active site 469008003457 CoA binding pocket [chemical binding]; other site 469008003458 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 469008003459 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 469008003460 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 469008003461 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 469008003462 NAD(P) binding site [chemical binding]; other site 469008003463 homotetramer interface [polypeptide binding]; other site 469008003464 homodimer interface [polypeptide binding]; other site 469008003465 active site 469008003466 acyl carrier protein; Provisional; Region: acpP; PRK00982 469008003467 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 469008003468 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 469008003469 dimer interface [polypeptide binding]; other site 469008003470 active site 469008003471 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469008003472 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 469008003473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008003474 catalytic residue [active] 469008003475 conserved hypothetical protein, YceG family; Region: TIGR00247 469008003476 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 469008003477 dimerization interface [polypeptide binding]; other site 469008003478 thymidylate kinase; Validated; Region: tmk; PRK00698 469008003479 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 469008003480 TMP-binding site; other site 469008003481 ATP-binding site [chemical binding]; other site 469008003482 DNA polymerase III subunit delta'; Validated; Region: PRK07993 469008003483 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 469008003484 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008003485 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469008003486 active site 469008003487 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 469008003488 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008003489 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 469008003490 active site turn [active] 469008003491 phosphorylation site [posttranslational modification] 469008003492 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 469008003493 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 469008003494 N-terminal plug; other site 469008003495 ligand-binding site [chemical binding]; other site 469008003496 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 469008003497 nucleotide binding site/active site [active] 469008003498 HIT family signature motif; other site 469008003499 catalytic residue [active] 469008003500 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 469008003501 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 469008003502 putative dimer interface [polypeptide binding]; other site 469008003503 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 469008003504 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 469008003505 thiamine kinase; Region: ycfN_thiK; TIGR02721 469008003506 active site 469008003507 substrate binding site [chemical binding]; other site 469008003508 ATP binding site [chemical binding]; other site 469008003509 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 469008003510 beta-hexosaminidase; Provisional; Region: PRK05337 469008003511 hypothetical protein; Provisional; Region: PRK04940 469008003512 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 469008003513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008003514 hypothetical protein; Provisional; Region: PRK11280 469008003515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008003516 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008003517 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008003518 L,D-transpeptidase; Provisional; Region: PRK10260 469008003519 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008003520 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008003521 transcription-repair coupling factor; Provisional; Region: PRK10689 469008003522 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 469008003523 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 469008003524 ATP binding site [chemical binding]; other site 469008003525 putative Mg++ binding site [ion binding]; other site 469008003526 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 469008003527 nucleotide binding region [chemical binding]; other site 469008003528 ATP-binding site [chemical binding]; other site 469008003529 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 469008003530 Predicted membrane protein [Function unknown]; Region: COG4763 469008003531 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008003532 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 469008003533 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008003534 FtsX-like permease family; Region: FtsX; pfam02687 469008003535 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 469008003536 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008003537 Walker A/P-loop; other site 469008003538 ATP binding site [chemical binding]; other site 469008003539 Q-loop/lid; other site 469008003540 ABC transporter signature motif; other site 469008003541 Walker B; other site 469008003542 D-loop; other site 469008003543 H-loop/switch region; other site 469008003544 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 469008003545 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469008003546 FtsX-like permease family; Region: FtsX; pfam02687 469008003547 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003548 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003549 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003550 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003552 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003553 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003554 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003556 NAD-dependent deacetylase; Provisional; Region: PRK00481 469008003557 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 469008003558 NAD+ binding site [chemical binding]; other site 469008003559 substrate binding site [chemical binding]; other site 469008003560 Zn binding site [ion binding]; other site 469008003561 Repair protein; Region: Repair_PSII; cl01535 469008003563 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 469008003564 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 469008003565 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008003566 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 469008003567 dimer interface [polypeptide binding]; other site 469008003568 conserved gate region; other site 469008003569 putative PBP binding loops; other site 469008003570 ABC-ATPase subunit interface; other site 469008003571 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008003572 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 469008003573 dimer interface [polypeptide binding]; other site 469008003574 conserved gate region; other site 469008003575 putative PBP binding loops; other site 469008003576 ABC-ATPase subunit interface; other site 469008003577 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 469008003578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008003579 Walker A/P-loop; other site 469008003580 ATP binding site [chemical binding]; other site 469008003581 Q-loop/lid; other site 469008003582 ABC transporter signature motif; other site 469008003583 Walker B; other site 469008003584 D-loop; other site 469008003585 H-loop/switch region; other site 469008003586 TOBE domain; Region: TOBE_2; pfam08402 469008003587 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 469008003588 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 469008003589 metal binding site [ion binding]; metal-binding site 469008003590 dimer interface [polypeptide binding]; other site 469008003591 Uncharacterized conserved protein [Function unknown]; Region: COG2850 469008003592 Cupin-like domain; Region: Cupin_8; pfam13621 469008003593 sensor protein PhoQ; Provisional; Region: PRK10815 469008003594 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 469008003595 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 469008003596 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 469008003597 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 469008003598 ATP binding site [chemical binding]; other site 469008003599 Mg2+ binding site [ion binding]; other site 469008003600 G-X-G motif; other site 469008003601 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 469008003602 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 469008003603 active site 469008003604 phosphorylation site [posttranslational modification] 469008003605 intermolecular recognition site; other site 469008003606 dimerization interface [polypeptide binding]; other site 469008003607 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 469008003608 DNA binding site [nucleotide binding] 469008003609 adenylosuccinate lyase; Provisional; Region: PRK09285 469008003610 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 469008003611 tetramer interface [polypeptide binding]; other site 469008003612 active site 469008003613 putative lysogenization regulator; Reviewed; Region: PRK00218 469008003614 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 469008003615 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 469008003616 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 469008003617 nudix motif; other site 469008003618 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 469008003619 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 469008003620 probable active site [active] 469008003621 isocitrate dehydrogenase; Validated; Region: PRK07362 469008003622 isocitrate dehydrogenase; Reviewed; Region: PRK07006 469008003623 anti-adapter protein IraM; Provisional; Region: PRK09919 469008003624 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 469008003625 transcriptional regulator MirA; Provisional; Region: PRK15043 469008003626 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 469008003627 DNA binding residues [nucleotide binding] 469008003628 Sensors of blue-light using FAD; Region: BLUF; smart01034 469008003629 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 469008003630 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 469008003631 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 469008003632 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008003633 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 469008003634 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 469008003635 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 469008003636 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008003637 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008003638 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 469008003639 cell division inhibitor MinD; Provisional; Region: PRK10818 469008003640 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 469008003641 Switch I; other site 469008003642 Switch II; other site 469008003643 septum formation inhibitor; Reviewed; Region: minC; PRK03511 469008003644 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 469008003645 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 469008003646 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 469008003647 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 469008003648 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 469008003649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 469008003650 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 469008003651 hypothetical protein; Provisional; Region: PRK10691 469008003652 hypothetical protein; Provisional; Region: PRK05170 469008003654 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 469008003655 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 469008003656 Catalytic site [active] 469008003657 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 469008003658 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 469008003659 active site 469008003660 DNA binding site [nucleotide binding] 469008003661 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 469008003662 disulfide bond formation protein B; Provisional; Region: PRK01749 469008003663 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 469008003664 transmembrane helices; other site 469008003665 fatty acid metabolism regulator; Provisional; Region: PRK04984 469008003666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008003667 DNA-binding site [nucleotide binding]; DNA binding site 469008003668 FadR C-terminal domain; Region: FadR_C; pfam07840 469008003669 SpoVR family protein; Provisional; Region: PRK11767 469008003670 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 469008003671 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 469008003672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008003673 alanine racemase; Reviewed; Region: dadX; PRK03646 469008003674 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 469008003675 active site 469008003676 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008003677 substrate binding site [chemical binding]; other site 469008003678 catalytic residues [active] 469008003679 dimer interface [polypeptide binding]; other site 469008003680 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 469008003681 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469008003682 TrkA-C domain; Region: TrkA_C; pfam02080 469008003683 Transporter associated domain; Region: CorC_HlyC; smart01091 469008003684 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 469008003685 dimer interface [polypeptide binding]; other site 469008003686 catalytic triad [active] 469008003687 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 469008003688 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 469008003689 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008003690 catalytic residue [active] 469008003691 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 469008003692 Flagellar regulator YcgR; Region: YcgR; pfam07317 469008003693 PilZ domain; Region: PilZ; pfam07238 469008003694 hypothetical protein; Provisional; Region: PRK10457 469008003695 trehalase; Provisional; Region: treA; PRK13271 469008003696 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 469008003697 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 469008003698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 469008003699 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 469008003700 dimerization domain swap beta strand [polypeptide binding]; other site 469008003701 regulatory protein interface [polypeptide binding]; other site 469008003702 active site 469008003703 regulatory phosphorylation site [posttranslational modification]; other site 469008003704 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008003705 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008003706 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 469008003707 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 469008003708 Dak1 domain; Region: Dak1; pfam02733 469008003709 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 469008003710 PAS domain; Region: PAS; smart00091 469008003711 putative active site [active] 469008003712 heme pocket [chemical binding]; other site 469008003713 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 469008003714 Walker A motif; other site 469008003715 ATP binding site [chemical binding]; other site 469008003716 Walker B motif; other site 469008003717 arginine finger; other site 469008003718 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008003719 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 469008003720 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008003721 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008003722 GTP-binding protein YchF; Reviewed; Region: PRK09601 469008003723 YchF GTPase; Region: YchF; cd01900 469008003724 G1 box; other site 469008003725 GTP/Mg2+ binding site [chemical binding]; other site 469008003726 Switch I region; other site 469008003727 G2 box; other site 469008003728 Switch II region; other site 469008003729 G3 box; other site 469008003730 G4 box; other site 469008003731 G5 box; other site 469008003732 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 469008003733 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 469008003734 putative active site [active] 469008003735 catalytic residue [active] 469008003736 hypothetical protein; Provisional; Region: PRK10692 469008003737 putative transporter; Provisional; Region: PRK11660 469008003738 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 469008003739 Sulfate transporter family; Region: Sulfate_transp; pfam00916 469008003740 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 469008003741 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 469008003742 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 469008003743 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008003744 active site 469008003745 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 469008003746 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469008003747 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 469008003748 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 469008003749 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 469008003750 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 469008003751 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 469008003752 tRNA; other site 469008003753 putative tRNA binding site [nucleotide binding]; other site 469008003754 putative NADP binding site [chemical binding]; other site 469008003755 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 469008003756 peptide chain release factor 1; Validated; Region: prfA; PRK00591 469008003757 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469008003758 RF-1 domain; Region: RF-1; pfam00472 469008003759 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 469008003760 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 469008003761 hypothetical protein; Provisional; Region: PRK10278 469008003762 hypothetical protein; Provisional; Region: PRK10941 469008003763 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 469008003764 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 469008003765 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008003766 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003767 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003768 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008003769 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 469008003770 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008003771 cation transport regulator; Reviewed; Region: chaB; PRK09582 469008003772 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 469008003773 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 469008003774 putative active site pocket [active] 469008003775 dimerization interface [polypeptide binding]; other site 469008003776 putative catalytic residue [active] 469008003777 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 469008003778 putative invasin; Provisional; Region: PRK10177 469008003779 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008003780 transcriptional regulator NarL; Provisional; Region: PRK10651 469008003781 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 469008003782 active site 469008003783 phosphorylation site [posttranslational modification] 469008003784 intermolecular recognition site; other site 469008003785 dimerization interface [polypeptide binding]; other site 469008003786 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 469008003787 DNA binding residues [nucleotide binding] 469008003788 dimerization interface [polypeptide binding]; other site 469008003789 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 469008003790 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 469008003791 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 469008003792 dimerization interface [polypeptide binding]; other site 469008003793 Histidine kinase; Region: HisKA_3; pfam07730 469008003794 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 469008003795 ATP binding site [chemical binding]; other site 469008003796 Mg2+ binding site [ion binding]; other site 469008003797 G-X-G motif; other site 469008003798 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 469008003799 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 469008003800 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 469008003801 [4Fe-4S] binding site [ion binding]; other site 469008003802 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 469008003803 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 469008003804 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 469008003805 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 469008003806 molybdopterin cofactor binding site; other site 469008003807 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 469008003808 4Fe-4S binding domain; Region: Fer4; cl02805 469008003809 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 469008003810 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 469008003811 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 469008003812 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 469008003813 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 469008003814 putative active site [active] 469008003815 putative substrate binding site [chemical binding]; other site 469008003816 putative cosubstrate binding site; other site 469008003817 catalytic site [active] 469008003818 SEC-C motif; Region: SEC-C; pfam02810 469008003819 hypothetical protein; Provisional; Region: PRK04233 469008003820 hypothetical protein; Provisional; Region: PRK10279 469008003821 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 469008003822 active site 469008003823 nucleophile elbow; other site 469008003824 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 469008003825 active site 469008003826 response regulator of RpoS; Provisional; Region: PRK10693 469008003827 phosphorylation site [posttranslational modification] 469008003828 intermolecular recognition site; other site 469008003829 dimerization interface [polypeptide binding]; other site 469008003830 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469008003831 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 469008003832 active site 469008003833 tetramer interface; other site 469008003834 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 469008003835 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 469008003836 thymidine kinase; Provisional; Region: PRK04296 469008003837 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 469008003838 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 469008003839 putative catalytic cysteine [active] 469008003840 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 469008003841 putative active site [active] 469008003842 metal binding site [ion binding]; metal-binding site 469008003843 hypothetical protein; Provisional; Region: PRK11111 469008003844 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 469008003845 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008003846 peptide binding site [polypeptide binding]; other site 469008003847 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 469008003848 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 469008003849 dimer interface [polypeptide binding]; other site 469008003850 conserved gate region; other site 469008003851 putative PBP binding loops; other site 469008003852 ABC-ATPase subunit interface; other site 469008003853 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 469008003854 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008003855 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 469008003856 dimer interface [polypeptide binding]; other site 469008003857 conserved gate region; other site 469008003858 putative PBP binding loops; other site 469008003859 ABC-ATPase subunit interface; other site 469008003860 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 469008003861 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003862 Walker A/P-loop; other site 469008003863 ATP binding site [chemical binding]; other site 469008003864 Q-loop/lid; other site 469008003865 ABC transporter signature motif; other site 469008003866 Walker B; other site 469008003867 D-loop; other site 469008003868 H-loop/switch region; other site 469008003869 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008003870 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 469008003871 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008003872 Walker A/P-loop; other site 469008003873 ATP binding site [chemical binding]; other site 469008003874 Q-loop/lid; other site 469008003875 ABC transporter signature motif; other site 469008003876 Walker B; other site 469008003877 D-loop; other site 469008003878 H-loop/switch region; other site 469008003879 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008003880 dsDNA-mimic protein; Reviewed; Region: PRK05094 469008003881 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 469008003882 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 469008003883 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 469008003884 putative active site [active] 469008003885 catalytic site [active] 469008003886 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 469008003887 putative active site [active] 469008003888 catalytic site [active] 469008003889 voltage-gated potassium channel; Provisional; Region: PRK10537 469008003890 Ion channel; Region: Ion_trans_2; pfam07885 469008003891 TrkA-N domain; Region: TrkA_N; pfam02254 469008003892 YciI-like protein; Reviewed; Region: PRK11370 469008003893 transport protein TonB; Provisional; Region: PRK10819 469008003894 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469008003895 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 469008003896 intracellular septation protein A; Reviewed; Region: PRK00259 469008003897 hypothetical protein; Provisional; Region: PRK02868 469008003898 outer membrane protein W; Provisional; Region: PRK10959 469008003899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 469008003900 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 469008003901 dimerization interface [polypeptide binding]; other site 469008003902 metal binding site [ion binding]; metal-binding site 469008003903 General stress protein [General function prediction only]; Region: GsiB; COG3729 469008003904 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 469008003905 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 469008003906 substrate binding site [chemical binding]; other site 469008003907 active site 469008003908 catalytic residues [active] 469008003909 heterodimer interface [polypeptide binding]; other site 469008003910 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 469008003911 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 469008003912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008003913 catalytic residue [active] 469008003914 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 469008003915 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 469008003916 active site 469008003917 ribulose/triose binding site [chemical binding]; other site 469008003918 phosphate binding site [ion binding]; other site 469008003919 substrate (anthranilate) binding pocket [chemical binding]; other site 469008003920 product (indole) binding pocket [chemical binding]; other site 469008003921 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 469008003922 active site 469008003923 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 469008003924 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469008003925 glutamine binding [chemical binding]; other site 469008003926 catalytic triad [active] 469008003927 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008003928 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 469008003929 anthranilate synthase component I; Provisional; Region: PRK13564 469008003930 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469008003931 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 469008003932 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 469008003933 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 469008003934 active site 469008003935 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 469008003936 hypothetical protein; Provisional; Region: PRK11630 469008003938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003939 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003940 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003941 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008003943 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008003944 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008003945 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008003947 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 469008003948 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 469008003949 RNA binding surface [nucleotide binding]; other site 469008003950 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 469008003951 probable active site [active] 469008003952 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 469008003953 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 469008003954 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 469008003955 homodimer interface [polypeptide binding]; other site 469008003956 Walker A motif; other site 469008003957 ATP binding site [chemical binding]; other site 469008003958 hydroxycobalamin binding site [chemical binding]; other site 469008003959 Walker B motif; other site 469008003960 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 469008003961 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 469008003962 NADP binding site [chemical binding]; other site 469008003963 homodimer interface [polypeptide binding]; other site 469008003964 active site 469008003965 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 469008003966 putative inner membrane peptidase; Provisional; Region: PRK11778 469008003967 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469008003968 tandem repeat interface [polypeptide binding]; other site 469008003969 oligomer interface [polypeptide binding]; other site 469008003970 active site residues [active] 469008003971 hypothetical protein; Provisional; Region: PRK11037 469008003972 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 469008003973 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 469008003974 active site 469008003975 interdomain interaction site; other site 469008003976 putative metal-binding site [ion binding]; other site 469008003977 nucleotide binding site [chemical binding]; other site 469008003978 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 469008003979 domain I; other site 469008003980 DNA binding groove [nucleotide binding] 469008003981 phosphate binding site [ion binding]; other site 469008003982 domain II; other site 469008003983 domain III; other site 469008003984 nucleotide binding site [chemical binding]; other site 469008003985 catalytic site [active] 469008003986 domain IV; other site 469008003987 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008003988 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008003989 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 469008003990 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 469008003991 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 469008003992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008003993 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 469008003994 substrate binding site [chemical binding]; other site 469008003995 putative dimerization interface [polypeptide binding]; other site 469008003996 aconitate hydratase; Validated; Region: PRK09277 469008003997 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 469008003998 substrate binding site [chemical binding]; other site 469008003999 ligand binding site [chemical binding]; other site 469008004000 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 469008004001 substrate binding site [chemical binding]; other site 469008004002 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 469008004003 dimerization interface [polypeptide binding]; other site 469008004004 active site 469008004005 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008004006 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 469008004007 active site 469008004008 Predicted membrane protein [Function unknown]; Region: COG3771 469008004009 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 469008004010 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 469008004011 TPR motif; other site 469008004012 binding surface 469008004013 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 469008004014 binding surface 469008004015 TPR motif; other site 469008004016 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 469008004017 active site 469008004018 dimer interface [polypeptide binding]; other site 469008004019 translation initiation factor Sui1; Validated; Region: PRK06824 469008004020 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 469008004021 putative rRNA binding site [nucleotide binding]; other site 469008004022 lipoprotein; Provisional; Region: PRK10540 469008004023 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008004024 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008004025 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008004026 hypothetical protein; Provisional; Region: PRK13658 469008004027 RNase II stability modulator; Provisional; Region: PRK10060 469008004028 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 469008004029 putative active site [active] 469008004030 heme pocket [chemical binding]; other site 469008004031 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004032 metal binding site [ion binding]; metal-binding site 469008004033 active site 469008004034 I-site; other site 469008004035 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 469008004036 exoribonuclease II; Provisional; Region: PRK05054 469008004037 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469008004038 RNB domain; Region: RNB; pfam00773 469008004039 S1 RNA binding domain; Region: S1; pfam00575 469008004040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 469008004041 Uncharacterized conserved protein [Function unknown]; Region: COG2128 469008004042 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 469008004043 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 469008004044 NAD binding site [chemical binding]; other site 469008004045 homotetramer interface [polypeptide binding]; other site 469008004046 homodimer interface [polypeptide binding]; other site 469008004047 substrate binding site [chemical binding]; other site 469008004048 active site 469008004049 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 469008004050 putative active site [active] 469008004051 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 469008004052 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004053 Walker A/P-loop; other site 469008004054 ATP binding site [chemical binding]; other site 469008004055 Q-loop/lid; other site 469008004056 ABC transporter signature motif; other site 469008004057 Walker B; other site 469008004058 D-loop; other site 469008004059 H-loop/switch region; other site 469008004060 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 469008004061 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004062 Walker A/P-loop; other site 469008004063 ATP binding site [chemical binding]; other site 469008004064 Q-loop/lid; other site 469008004065 ABC transporter signature motif; other site 469008004066 Walker B; other site 469008004067 D-loop; other site 469008004068 H-loop/switch region; other site 469008004069 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008004070 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 469008004071 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008004072 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 469008004073 dimer interface [polypeptide binding]; other site 469008004074 conserved gate region; other site 469008004075 putative PBP binding loops; other site 469008004076 ABC-ATPase subunit interface; other site 469008004077 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 469008004078 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 469008004079 dimer interface [polypeptide binding]; other site 469008004080 conserved gate region; other site 469008004081 putative PBP binding loops; other site 469008004082 ABC-ATPase subunit interface; other site 469008004083 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 469008004084 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 469008004085 peptide binding site [polypeptide binding]; other site 469008004086 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 469008004087 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469008004088 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 469008004089 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469008004090 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 469008004091 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469008004092 catalytic triad [active] 469008004093 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469008004094 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 469008004095 non-specific DNA binding site [nucleotide binding]; other site 469008004096 salt bridge; other site 469008004097 sequence-specific DNA binding site [nucleotide binding]; other site 469008004098 Cupin domain; Region: Cupin_2; pfam07883 469008004099 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 469008004100 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 469008004101 NAD(P) binding site [chemical binding]; other site 469008004102 catalytic residues [active] 469008004103 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 469008004104 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 469008004105 4-aminobutyrate transaminase; Provisional; Region: PRK09792 469008004106 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 469008004107 inhibitor-cofactor binding pocket; inhibition site 469008004108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004109 catalytic residue [active] 469008004110 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 469008004111 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 469008004112 Walker A motif; other site 469008004113 ATP binding site [chemical binding]; other site 469008004114 Walker B motif; other site 469008004115 arginine finger; other site 469008004116 phage shock protein PspA; Provisional; Region: PRK10698 469008004117 phage shock protein B; Provisional; Region: pspB; PRK09458 469008004118 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 469008004119 phage shock protein C; Region: phageshock_pspC; TIGR02978 469008004120 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 469008004121 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 469008004122 active site residue [active] 469008004123 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 469008004124 sucrose phosphorylase; Provisional; Region: PRK13840 469008004125 active site 469008004126 homodimer interface [polypeptide binding]; other site 469008004127 catalytic site [active] 469008004128 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 469008004129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 469008004130 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469008004131 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 469008004132 dimer interface [polypeptide binding]; other site 469008004133 conserved gate region; other site 469008004134 putative PBP binding loops; other site 469008004135 ABC-ATPase subunit interface; other site 469008004136 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008004137 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 469008004138 dimer interface [polypeptide binding]; other site 469008004139 conserved gate region; other site 469008004140 putative PBP binding loops; other site 469008004141 ABC-ATPase subunit interface; other site 469008004142 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008004143 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 469008004144 putative NAD(P) binding site [chemical binding]; other site 469008004145 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 469008004146 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008004147 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008004148 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008004149 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 469008004150 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 469008004151 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 469008004152 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 469008004153 beta-phosphoglucomutase; Region: bPGM; TIGR01990 469008004154 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 469008004155 motif II; other site 469008004156 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 469008004157 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008004158 Walker A/P-loop; other site 469008004159 ATP binding site [chemical binding]; other site 469008004160 Q-loop/lid; other site 469008004161 ABC transporter signature motif; other site 469008004162 Walker B; other site 469008004163 D-loop; other site 469008004164 H-loop/switch region; other site 469008004165 TOBE domain; Region: TOBE_2; pfam08402 469008004166 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 469008004167 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 469008004168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008004169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008004170 DNA binding site [nucleotide binding] 469008004171 domain linker motif; other site 469008004172 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 469008004173 putative dimerization interface [polypeptide binding]; other site 469008004174 putative ligand binding site [chemical binding]; other site 469008004175 Predicted ATPase [General function prediction only]; Region: COG3106 469008004176 hypothetical protein; Provisional; Region: PRK05415 469008004177 TIGR01620 family protein; Region: hyp_HI0043 469008004178 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 469008004179 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 469008004180 putative aromatic amino acid binding site; other site 469008004181 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 469008004182 Walker A motif; other site 469008004183 ATP binding site [chemical binding]; other site 469008004184 Walker B motif; other site 469008004185 arginine finger; other site 469008004186 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 469008004187 dimer interface [polypeptide binding]; other site 469008004188 catalytic triad [active] 469008004189 peroxidatic and resolving cysteines [active] 469008004190 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 469008004191 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 469008004192 active site 469008004193 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 469008004194 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 469008004195 putative active site [active] 469008004196 Zn binding site [ion binding]; other site 469008004197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008004198 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 469008004199 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008004200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008004201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004202 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 469008004203 putative effector binding pocket; other site 469008004204 putative dimerization interface [polypeptide binding]; other site 469008004205 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 469008004206 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008004207 peptide binding site [polypeptide binding]; other site 469008004208 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 469008004209 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008004210 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 469008004211 universal stress protein UspE; Provisional; Region: PRK11175 469008004212 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 469008004213 Ligand Binding Site [chemical binding]; other site 469008004214 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 469008004215 Ligand Binding Site [chemical binding]; other site 469008004217 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 469008004218 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469008004219 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 469008004220 DNA binding site [nucleotide binding] 469008004221 active site 469008004222 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 469008004223 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 469008004224 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 469008004225 amidohydrolase; Region: amidohydrolases; TIGR01891 469008004226 putative metal binding site [ion binding]; other site 469008004227 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 469008004228 amidohydrolase; Region: amidohydrolases; TIGR01891 469008004229 putative metal binding site [ion binding]; other site 469008004230 dimer interface [polypeptide binding]; other site 469008004231 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 469008004232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004233 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 469008004234 putative substrate binding pocket [chemical binding]; other site 469008004235 putative dimerization interface [polypeptide binding]; other site 469008004236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 469008004237 Smr domain; Region: Smr; pfam01713 469008004238 PAS domain S-box; Region: sensory_box; TIGR00229 469008004239 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 469008004240 putative active site [active] 469008004241 heme pocket [chemical binding]; other site 469008004242 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004244 metal binding site [ion binding]; metal-binding site 469008004245 active site 469008004246 I-site; other site 469008004247 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469008004248 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 469008004249 Cl binding site [ion binding]; other site 469008004250 oligomer interface [polypeptide binding]; other site 469008004251 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 469008004252 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 469008004253 ATP binding site [chemical binding]; other site 469008004254 Mg++ binding site [ion binding]; other site 469008004255 motif III; other site 469008004256 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 469008004257 nucleotide binding region [chemical binding]; other site 469008004258 ATP-binding site [chemical binding]; other site 469008004259 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 469008004260 putative RNA binding site [nucleotide binding]; other site 469008004261 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 469008004262 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 469008004263 Ligand Binding Site [chemical binding]; other site 469008004264 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 469008004265 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469008004266 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 469008004267 Int/Topo IB signature motif; other site 469008004268 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 469008004269 hypothetical protein; Provisional; Region: PRK09750 469008004270 restriction alleviation and modification protein; Reviewed; Region: lar; PRK09710 469008004271 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 469008004273 RecE exonuclease VIII, N-terminal fragment 469008004274 hypothetical protein; Reviewed; Region: PRK09790 469008004275 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 469008004276 Superinfection exclusion protein B; Region: SieB; pfam14163 469008004277 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 469008004278 Qin prophage, predicted S lysis protein, C-ter fragment 469008004279 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 469008004280 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 469008004281 catalytic residues [active] 469008004283 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 469008004284 Lipoprotein Rz1 precursor; Region: Rz1; pfam06085 469008004285 Cation transport protein; Region: TrkH; cl17365 469008004286 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469008004289 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469008004290 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 469008004291 catalytic residues [active] 469008004292 catalytic nucleophile [active] 469008004293 Presynaptic Site I dimer interface [polypeptide binding]; other site 469008004294 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469008004295 Synaptic Flat tetramer interface [polypeptide binding]; other site 469008004296 Synaptic Site I dimer interface [polypeptide binding]; other site 469008004297 DNA binding site [nucleotide binding] 469008004298 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 469008004299 DNA-binding interface [nucleotide binding]; DNA binding site 469008004300 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 469008004301 Ligand Binding Site [chemical binding]; other site 469008004302 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008004303 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 469008004304 trimer interface [polypeptide binding]; other site 469008004305 eyelet of channel; other site 469008004306 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469008004307 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 469008004308 dimer interface [polypeptide binding]; other site 469008004309 PYR/PP interface [polypeptide binding]; other site 469008004310 TPP binding site [chemical binding]; other site 469008004311 substrate binding site [chemical binding]; other site 469008004312 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469008004313 Domain of unknown function; Region: EKR; smart00890 469008004314 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008004315 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 469008004316 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 469008004317 TPP-binding site [chemical binding]; other site 469008004318 dimer interface [polypeptide binding]; other site 469008004319 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 469008004320 Domain of unknown function (DUF333); Region: DUF333; pfam03891 469008004321 heat-inducible protein; Provisional; Region: PRK10449 469008004322 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 469008004323 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469008004324 putative ligand binding site [chemical binding]; other site 469008004325 putative NAD binding site [chemical binding]; other site 469008004326 catalytic site [active] 469008004327 hypothetical protein; Provisional; Region: PRK10695 469008004328 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 469008004329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 469008004330 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 469008004331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004332 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 469008004333 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008004334 NAD(P) binding site [chemical binding]; other site 469008004335 catalytic residues [active] 469008004337 Transposase; Region: HTH_Tnp_1; pfam01527 469008004338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004339 putative transposase OrfB; Reviewed; Region: PHA02517 469008004340 HTH-like domain; Region: HTH_21; pfam13276 469008004341 Integrase core domain; Region: rve; pfam00665 469008004342 Integrase core domain; Region: rve_2; pfam13333 469008004343 Transposase; Region: HTH_Tnp_1; cl17663 469008004344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004345 putative transposase OrfB; Reviewed; Region: PHA02517 469008004346 HTH-like domain; Region: HTH_21; pfam13276 469008004347 Integrase core domain; Region: rve; pfam00665 469008004348 Integrase core domain; Region: rve_2; pfam13333 469008004350 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 469008004351 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 469008004352 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469008004353 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 469008004354 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469008004355 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 469008004356 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469008004357 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 469008004358 S-adenosylmethionine binding site [chemical binding]; other site 469008004359 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 469008004360 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008004361 active site 469008004362 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 469008004363 active site 469008004364 catalytic residues [active] 469008004365 azoreductase; Reviewed; Region: PRK00170 469008004366 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008004367 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 469008004368 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 469008004369 ATP binding site [chemical binding]; other site 469008004370 putative Mg++ binding site [ion binding]; other site 469008004371 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 469008004372 nucleotide binding region [chemical binding]; other site 469008004373 ATP-binding site [chemical binding]; other site 469008004374 Helicase associated domain (HA2); Region: HA2; pfam04408 469008004375 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 469008004376 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 469008004377 Uncharacterized conserved protein [Function unknown]; Region: COG1434 469008004378 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 469008004379 putative active site [active] 469008004380 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 469008004381 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008004382 NAD binding site [chemical binding]; other site 469008004383 catalytic residues [active] 469008004384 substrate binding site [chemical binding]; other site 469008004385 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 469008004386 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008004387 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008004388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008004389 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008004390 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008004391 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008004392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008004393 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008004394 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008004395 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008004396 cytochrome b561; Provisional; Region: PRK11513 469008004397 hypothetical protein; Provisional; Region: PRK10040 469008004398 small toxic polypeptide; Provisional; Region: PRK09738 469008004399 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 469008004400 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008004401 dimer interface [polypeptide binding]; other site 469008004402 ligand binding site [chemical binding]; other site 469008004403 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 469008004404 dimerization interface [polypeptide binding]; other site 469008004405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008004406 dimer interface [polypeptide binding]; other site 469008004407 putative CheW interface [polypeptide binding]; other site 469008004408 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 469008004409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004410 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 469008004411 dimerization interface [polypeptide binding]; other site 469008004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 469008004413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 469008004414 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 469008004415 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 469008004416 hypothetical protein; Provisional; Region: PRK11415 469008004417 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 469008004418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008004419 Coenzyme A binding pocket [chemical binding]; other site 469008004420 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 469008004421 putative trimer interface [polypeptide binding]; other site 469008004422 putative CoA binding site [chemical binding]; other site 469008004423 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 469008004424 putative trimer interface [polypeptide binding]; other site 469008004425 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 469008004426 putative CoA binding site [chemical binding]; other site 469008004427 putative trimer interface [polypeptide binding]; other site 469008004428 putative CoA binding site [chemical binding]; other site 469008004429 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 469008004430 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 469008004431 gating phenylalanine in ion channel; other site 469008004432 tellurite resistance protein TehB; Provisional; Region: PRK11207 469008004433 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 469008004434 S-adenosylmethionine binding site [chemical binding]; other site 469008004435 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 469008004436 IS605 orfA (putative transposase) homolog, disrupted by internal stop 469008004437 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 469008004438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 469008004439 Probable transposase; Region: OrfB_IS605; pfam01385 469008004440 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 469008004441 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 469008004442 benzoate transporter; Region: benE; TIGR00843 469008004443 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 469008004444 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 469008004445 non-specific DNA binding site [nucleotide binding]; other site 469008004446 salt bridge; other site 469008004447 sequence-specific DNA binding site [nucleotide binding]; other site 469008004448 Cupin domain; Region: Cupin_2; pfam07883 469008004449 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008004450 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 469008004451 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008004452 Collagenase; Region: DUF3656; pfam12392 469008004453 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 469008004454 YcfA-like protein; Region: YcfA; pfam07927 469008004455 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 469008004456 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 469008004457 sequence-specific DNA binding site [nucleotide binding]; other site 469008004458 salt bridge; other site 469008004459 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 469008004460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004461 DNA-binding site [nucleotide binding]; DNA binding site 469008004462 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 469008004463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004464 homodimer interface [polypeptide binding]; other site 469008004465 catalytic residue [active] 469008004466 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 469008004467 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469008004468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469008004469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008004470 Walker A/P-loop; other site 469008004471 ATP binding site [chemical binding]; other site 469008004472 Q-loop/lid; other site 469008004473 ABC transporter signature motif; other site 469008004474 Walker B; other site 469008004475 D-loop; other site 469008004476 H-loop/switch region; other site 469008004477 TOBE domain; Region: TOBE_2; pfam08402 469008004478 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 469008004479 dimer interface [polypeptide binding]; other site 469008004480 conserved gate region; other site 469008004481 putative PBP binding loops; other site 469008004482 ABC-ATPase subunit interface; other site 469008004483 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469008004484 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 469008004485 ABC-ATPase subunit interface; other site 469008004486 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 469008004487 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 469008004488 tetrameric interface [polypeptide binding]; other site 469008004489 NAD binding site [chemical binding]; other site 469008004490 catalytic residues [active] 469008004491 substrate binding site [chemical binding]; other site 469008004492 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 469008004493 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 469008004494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 469008004495 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 469008004496 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469008004497 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 469008004498 Prostaglandin dehydrogenases; Region: PGDH; cd05288 469008004499 NAD(P) binding site [chemical binding]; other site 469008004500 substrate binding site [chemical binding]; other site 469008004501 dimer interface [polypeptide binding]; other site 469008004502 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 469008004503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004504 DNA-binding site [nucleotide binding]; DNA binding site 469008004505 FCD domain; Region: FCD; pfam07729 469008004506 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469008004507 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 469008004508 N-terminal plug; other site 469008004509 ligand-binding site [chemical binding]; other site 469008004510 PQQ-like domain; Region: PQQ_2; pfam13360 469008004511 L-asparagine permease; Provisional; Region: PRK15049 469008004512 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 469008004513 C-terminal domain interface [polypeptide binding]; other site 469008004514 GSH binding site (G-site) [chemical binding]; other site 469008004515 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 469008004516 dimer interface [polypeptide binding]; other site 469008004517 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 469008004518 dimer interface [polypeptide binding]; other site 469008004519 N-terminal domain interface [polypeptide binding]; other site 469008004520 substrate binding pocket (H-site) [chemical binding]; other site 469008004521 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 469008004522 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008004523 RHS Repeat; Region: RHS_repeat; pfam05593 469008004524 RHS Repeat; Region: RHS_repeat; pfam05593 469008004525 RHS Repeat; Region: RHS_repeat; pfam05593 469008004526 RHS Repeat; Region: RHS_repeat; pfam05593 469008004527 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008004528 RHS Repeat; Region: RHS_repeat; pfam05593 469008004529 RHS Repeat; Region: RHS_repeat; pfam05593 469008004530 RHS protein; Region: RHS; pfam03527 469008004531 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008004532 potential frameshift: common BLAST hit: gi|291281062|ref|YP_003497880.1| transposase yncI 469008004533 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008004534 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008004535 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004536 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004537 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008004538 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008004539 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008004540 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 469008004541 active site 1 [active] 469008004542 dimer interface [polypeptide binding]; other site 469008004543 hexamer interface [polypeptide binding]; other site 469008004544 active site 2 [active] 469008004545 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469008004546 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 469008004548 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 469008004549 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 469008004550 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 469008004551 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 469008004552 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 469008004553 [4Fe-4S] binding site [ion binding]; other site 469008004554 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 469008004555 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 469008004556 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 469008004557 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 469008004558 molybdopterin cofactor binding site; other site 469008004559 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 469008004560 potential frameshift: common BLAST hit: gi|260867911|ref|YP_003234313.1| T3SS effector-like protein EspR 469008004561 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 469008004562 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 469008004563 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 469008004564 aromatic amino acid exporter; Provisional; Region: PRK11689 469008004565 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 469008004566 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 469008004567 [4Fe-4S] binding site [ion binding]; other site 469008004568 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 469008004569 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 469008004570 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 469008004571 molybdopterin cofactor binding site; other site 469008004572 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 469008004573 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 469008004574 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 469008004575 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008004576 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469008004577 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 469008004578 non-specific DNA binding site [nucleotide binding]; other site 469008004579 salt bridge; other site 469008004580 sequence-specific DNA binding site [nucleotide binding]; other site 469008004581 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 469008004582 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 469008004583 NAD binding site [chemical binding]; other site 469008004584 substrate binding site [chemical binding]; other site 469008004585 catalytic Zn binding site [ion binding]; other site 469008004586 tetramer interface [polypeptide binding]; other site 469008004587 structural Zn binding site [ion binding]; other site 469008004588 malate dehydrogenase; Provisional; Region: PRK13529 469008004589 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469008004590 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 469008004591 NAD(P) binding site [chemical binding]; other site 469008004592 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 469008004593 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 469008004594 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 469008004595 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469008004596 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004597 Walker A/P-loop; other site 469008004598 ATP binding site [chemical binding]; other site 469008004599 Q-loop/lid; other site 469008004600 ABC transporter signature motif; other site 469008004601 Walker B; other site 469008004602 D-loop; other site 469008004603 H-loop/switch region; other site 469008004604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008004605 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 469008004606 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008004607 Walker A/P-loop; other site 469008004608 ATP binding site [chemical binding]; other site 469008004609 Q-loop/lid; other site 469008004610 ABC transporter signature motif; other site 469008004611 Walker B; other site 469008004612 D-loop; other site 469008004613 H-loop/switch region; other site 469008004614 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469008004615 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 469008004616 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008004617 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 469008004618 dimer interface [polypeptide binding]; other site 469008004619 conserved gate region; other site 469008004620 putative PBP binding loops; other site 469008004621 ABC-ATPase subunit interface; other site 469008004622 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469008004623 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 469008004624 dimer interface [polypeptide binding]; other site 469008004625 conserved gate region; other site 469008004626 putative PBP binding loops; other site 469008004627 ABC-ATPase subunit interface; other site 469008004628 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008004629 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 469008004630 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 469008004631 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 469008004632 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 469008004633 putative active site [active] 469008004634 heme pocket [chemical binding]; other site 469008004635 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 469008004636 putative active site [active] 469008004637 heme pocket [chemical binding]; other site 469008004638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004639 metal binding site [ion binding]; metal-binding site 469008004640 active site 469008004641 I-site; other site 469008004642 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 469008004643 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 469008004644 heme-binding site [chemical binding]; other site 469008004645 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004647 metal binding site [ion binding]; metal-binding site 469008004648 active site 469008004649 I-site; other site 469008004650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 469008004651 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 469008004652 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 469008004653 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 469008004654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004655 catalytic residue [active] 469008004656 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008004657 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469008004658 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008004659 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008004660 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008004661 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 469008004662 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469008004663 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 469008004664 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 469008004665 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 469008004666 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008004667 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 469008004668 FeS/SAM binding site; other site 469008004669 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 469008004670 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008004671 Sulfatase; Region: Sulfatase; pfam00884 469008004672 transcriptional regulator YdeO; Provisional; Region: PRK09940 469008004673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004674 putative oxidoreductase; Provisional; Region: PRK09939 469008004675 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 469008004676 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004677 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 469008004678 putative molybdopterin cofactor binding site; other site 469008004679 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 469008004680 mannosyl binding site [chemical binding]; other site 469008004681 Fimbrial protein; Region: Fimbrial; pfam00419 469008004682 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008004683 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008004684 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008004685 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008004686 PapC C-terminal domain; Region: PapC_C; pfam13953 469008004689 Helix-turn-helix domain; Region: HTH_18; pfam12833 469008004690 Fimbrial protein; Region: Fimbrial; cl01416 469008004691 HipA N-terminal domain; Region: Couple_hipA; pfam13657 469008004692 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 469008004693 HipA-like N-terminal domain; Region: HipA_N; pfam07805 469008004694 HipA-like C-terminal domain; Region: HipA_C; pfam07804 469008004695 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 469008004696 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 469008004697 non-specific DNA binding site [nucleotide binding]; other site 469008004698 salt bridge; other site 469008004699 sequence-specific DNA binding site [nucleotide binding]; other site 469008004700 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008004701 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 469008004702 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008004703 predicted lipoprotein, C-ter fragment 469008004704 LsrD, C-ter fragment 469008004705 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 469008004706 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 469008004707 ligand binding site [chemical binding]; other site 469008004708 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 469008004709 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 469008004710 putative active site; other site 469008004711 catalytic residue [active] 469008004712 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 469008004713 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 469008004714 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 469008004715 S-adenosylmethionine binding site [chemical binding]; other site 469008004716 Predicted membrane protein [Function unknown]; Region: COG3781 469008004717 altronate oxidoreductase; Provisional; Region: PRK03643 469008004718 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008004719 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008004720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008004721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004722 metal binding site [ion binding]; metal-binding site 469008004723 active site 469008004724 I-site; other site 469008004725 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 469008004726 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469008004727 glutaminase; Provisional; Region: PRK00971 469008004728 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 469008004729 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 469008004730 NAD(P) binding site [chemical binding]; other site 469008004731 catalytic residues [active] 469008004732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008004733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004734 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 469008004735 putative dimerization interface [polypeptide binding]; other site 469008004736 putative arabinose transporter; Provisional; Region: PRK03545 469008004737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004738 putative substrate translocation pore; other site 469008004739 inner membrane protein; Provisional; Region: PRK10995 469008004740 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 469008004741 non-specific DNA binding site [nucleotide binding]; other site 469008004742 salt bridge; other site 469008004743 sequence-specific DNA binding site [nucleotide binding]; other site 469008004744 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 469008004745 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 469008004746 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008004747 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 469008004748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008004749 hypothetical protein; Provisional; Region: PRK10106 469008004750 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 469008004751 EamA-like transporter family; Region: EamA; pfam00892 469008004752 EamA-like transporter family; Region: EamA; pfam00892 469008004753 putative transporter; Provisional; Region: PRK10054 469008004754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004755 putative substrate translocation pore; other site 469008004756 diguanylate cyclase; Provisional; Region: PRK09894 469008004757 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 469008004758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008004759 metal binding site [ion binding]; metal-binding site 469008004760 active site 469008004761 I-site; other site 469008004762 hypothetical protein; Provisional; Region: PRK10053 469008004763 hypothetical protein; Validated; Region: PRK03657 469008004764 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 469008004765 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 469008004766 active site 469008004767 Zn binding site [ion binding]; other site 469008004768 malonic semialdehyde reductase; Provisional; Region: PRK10538 469008004769 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 469008004770 putative NAD(P) binding site [chemical binding]; other site 469008004771 homodimer interface [polypeptide binding]; other site 469008004772 homotetramer interface [polypeptide binding]; other site 469008004773 active site 469008004774 Transcriptional regulators [Transcription]; Region: GntR; COG1802 469008004775 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008004776 DNA-binding site [nucleotide binding]; DNA binding site 469008004777 FCD domain; Region: FCD; pfam07729 469008004778 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 469008004779 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 469008004780 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008004781 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008004782 metabolite-proton symporter; Region: 2A0106; TIGR00883 469008004783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004784 putative substrate translocation pore; other site 469008004785 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469008004786 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 469008004787 catalytic residues [active] 469008004788 catalytic nucleophile [active] 469008004789 Presynaptic Site I dimer interface [polypeptide binding]; other site 469008004790 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469008004791 Synaptic Flat tetramer interface [polypeptide binding]; other site 469008004792 Synaptic Site I dimer interface [polypeptide binding]; other site 469008004793 DNA binding site [nucleotide binding] 469008004794 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 469008004795 DNA-binding interface [nucleotide binding]; DNA binding site 469008004796 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 469008004798 Transposase; Region: HTH_Tnp_1; pfam01527 469008004799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004800 putative transposase OrfB; Reviewed; Region: PHA02517 469008004801 HTH-like domain; Region: HTH_21; pfam13276 469008004802 Integrase core domain; Region: rve; pfam00665 469008004803 Integrase core domain; Region: rve_2; pfam13333 469008004804 Transposase; Region: HTH_Tnp_1; cl17663 469008004805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008004806 putative transposase OrfB; Reviewed; Region: PHA02517 469008004807 HTH-like domain; Region: HTH_21; pfam13276 469008004808 Integrase core domain; Region: rve; pfam00665 469008004809 Integrase core domain; Region: rve_2; pfam13333 469008004810 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 469008004811 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 469008004814 Hok/gef family; Region: HOK_GEF; pfam01848 469008004815 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 469008004816 primosomal protein DnaI; Provisional; Region: PRK02854 469008004817 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 469008004819 transcriptional repressor DicA; Reviewed; Region: PRK09706 469008004820 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 469008004821 non-specific DNA binding site [nucleotide binding]; other site 469008004822 salt bridge; other site 469008004823 sequence-specific DNA binding site [nucleotide binding]; other site 469008004824 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 469008004825 DicB protein; Region: DicB; pfam05358 469008004826 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 469008004828 Qin prophage, predicted defective integrase, C-ter fragment 469008004829 predicted protein 469008004830 putative oxidoreductase; Provisional; Region: PRK10083 469008004831 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 469008004832 putative NAD(P) binding site [chemical binding]; other site 469008004833 catalytic Zn binding site [ion binding]; other site 469008004834 structural Zn binding site [ion binding]; other site 469008004835 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 469008004836 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 469008004837 putative active site pocket [active] 469008004838 putative metal binding site [ion binding]; other site 469008004839 hypothetical protein; Provisional; Region: PRK02237 469008004840 hypothetical protein; Provisional; Region: PRK13659 469008004841 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 469008004842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008004843 Coenzyme A binding pocket [chemical binding]; other site 469008004844 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 469008004845 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 469008004846 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 469008004847 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 469008004848 putative [Fe4-S4] binding site [ion binding]; other site 469008004849 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004850 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 469008004851 putative molybdopterin cofactor binding site; other site 469008004852 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 469008004853 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 469008004854 putative [Fe4-S4] binding site [ion binding]; other site 469008004855 putative molybdopterin cofactor binding site [chemical binding]; other site 469008004856 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 469008004857 putative molybdopterin cofactor binding site; other site 469008004858 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 469008004859 4Fe-4S binding domain; Region: Fer4; cl02805 469008004860 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 469008004861 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 469008004862 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008004863 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 469008004864 Cl- selectivity filter; other site 469008004865 Cl- binding residues [ion binding]; other site 469008004866 pore gating glutamate residue; other site 469008004867 dimer interface [polypeptide binding]; other site 469008004868 putative dithiobiotin synthetase; Provisional; Region: PRK12374 469008004869 AAA domain; Region: AAA_26; pfam13500 469008004870 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 469008004871 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008004872 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008004873 nucleotide binding site [chemical binding]; other site 469008004874 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 469008004875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008004876 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 469008004877 dimerization interface [polypeptide binding]; other site 469008004878 substrate binding pocket [chemical binding]; other site 469008004879 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 469008004880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004881 putative substrate translocation pore; other site 469008004882 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 469008004883 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 469008004884 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 469008004885 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 469008004886 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008004887 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 469008004888 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 469008004889 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 469008004890 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 469008004891 ligand binding site [chemical binding]; other site 469008004892 homodimer interface [polypeptide binding]; other site 469008004893 NAD(P) binding site [chemical binding]; other site 469008004894 trimer interface B [polypeptide binding]; other site 469008004895 trimer interface A [polypeptide binding]; other site 469008004896 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 469008004897 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004898 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004899 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008004900 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 469008004901 Spore germination protein; Region: Spore_permease; cl17796 469008004902 dihydromonapterin reductase; Provisional; Region: PRK06483 469008004903 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 469008004904 NADP binding site [chemical binding]; other site 469008004905 substrate binding pocket [chemical binding]; other site 469008004906 active site 469008004907 GlpM protein; Region: GlpM; pfam06942 469008004908 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 469008004909 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 469008004910 active site 469008004911 phosphorylation site [posttranslational modification] 469008004912 intermolecular recognition site; other site 469008004913 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 469008004914 DNA binding site [nucleotide binding] 469008004915 sensor protein RstB; Provisional; Region: PRK10604 469008004916 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 469008004917 dimerization interface [polypeptide binding]; other site 469008004918 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 469008004919 dimer interface [polypeptide binding]; other site 469008004920 phosphorylation site [posttranslational modification] 469008004921 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 469008004922 ATP binding site [chemical binding]; other site 469008004923 Mg2+ binding site [ion binding]; other site 469008004924 G-X-G motif; other site 469008004925 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 469008004926 fumarate hydratase; Reviewed; Region: fumC; PRK00485 469008004927 Class II fumarases; Region: Fumarase_classII; cd01362 469008004928 active site 469008004929 tetramer interface [polypeptide binding]; other site 469008004930 fumarate hydratase; Provisional; Region: PRK15389 469008004931 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 469008004932 Fumarase C-terminus; Region: Fumerase_C; pfam05683 469008004933 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 469008004934 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 469008004935 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 469008004936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 469008004937 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 469008004938 putative outer membrane porin protein; Provisional; Region: PRK11379 469008004939 glucuronide transporter; Provisional; Region: PRK09848 469008004940 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008004941 beta-D-glucuronidase; Provisional; Region: PRK10150 469008004942 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008004943 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008004944 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008004945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008004946 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008004947 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 469008004948 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 469008004949 NAD binding site [chemical binding]; other site 469008004950 substrate binding site [chemical binding]; other site 469008004951 homotetramer interface [polypeptide binding]; other site 469008004952 homodimer interface [polypeptide binding]; other site 469008004953 active site 469008004954 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 469008004955 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008004956 DNA binding site [nucleotide binding] 469008004957 domain linker motif; other site 469008004958 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 469008004959 putative dimerization interface [polypeptide binding]; other site 469008004960 putative ligand binding site [chemical binding]; other site 469008004961 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 469008004962 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008004963 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 469008004964 active site turn [active] 469008004965 phosphorylation site [posttranslational modification] 469008004966 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 469008004967 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 469008004968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008004969 homodimer interface [polypeptide binding]; other site 469008004970 catalytic residue [active] 469008004971 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 469008004972 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 469008004973 active site 469008004974 purine riboside binding site [chemical binding]; other site 469008004975 putative oxidoreductase; Provisional; Region: PRK11579 469008004976 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008004977 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008004978 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 469008004979 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 469008004980 electron transport complex protein RsxA; Provisional; Region: PRK05151 469008004981 electron transport complex protein RnfB; Provisional; Region: PRK05113 469008004982 Putative Fe-S cluster; Region: FeS; pfam04060 469008004983 4Fe-4S binding domain; Region: Fer4; pfam00037 469008004984 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 469008004985 SLBB domain; Region: SLBB; pfam10531 469008004986 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 469008004987 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 469008004988 electron transport complex protein RnfG; Validated; Region: PRK01908 469008004989 electron transport complex RsxE subunit; Provisional; Region: PRK12405 469008004990 endonuclease III; Provisional; Region: PRK10702 469008004991 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008004992 minor groove reading motif; other site 469008004993 helix-hairpin-helix signature motif; other site 469008004994 substrate binding pocket [chemical binding]; other site 469008004995 active site 469008004996 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 469008004997 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008004998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008004999 putative substrate translocation pore; other site 469008005000 POT family; Region: PTR2; pfam00854 469008005001 glutathionine S-transferase; Provisional; Region: PRK10542 469008005002 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 469008005003 C-terminal domain interface [polypeptide binding]; other site 469008005004 GSH binding site (G-site) [chemical binding]; other site 469008005005 dimer interface [polypeptide binding]; other site 469008005006 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 469008005007 N-terminal domain interface [polypeptide binding]; other site 469008005008 dimer interface [polypeptide binding]; other site 469008005009 substrate binding pocket (H-site) [chemical binding]; other site 469008005010 pyridoxamine kinase; Validated; Region: PRK05756 469008005011 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 469008005012 dimer interface [polypeptide binding]; other site 469008005013 pyridoxal binding site [chemical binding]; other site 469008005014 ATP binding site [chemical binding]; other site 469008005015 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 469008005016 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 469008005017 active site 469008005018 HIGH motif; other site 469008005019 dimer interface [polypeptide binding]; other site 469008005020 KMSKS motif; other site 469008005021 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 469008005022 RNA binding surface [nucleotide binding]; other site 469008005023 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 469008005024 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 469008005025 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 469008005026 lysozyme inhibitor; Provisional; Region: PRK11372 469008005027 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 469008005028 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 469008005029 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 469008005030 transcriptional regulator SlyA; Provisional; Region: PRK03573 469008005031 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 469008005032 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 469008005033 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008005034 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008005035 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008005036 Fusaric acid resistance protein family; Region: FUSC; pfam04632 469008005037 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008005038 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 469008005039 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 469008005040 E-class dimer interface [polypeptide binding]; other site 469008005041 P-class dimer interface [polypeptide binding]; other site 469008005042 active site 469008005043 Cu2+ binding site [ion binding]; other site 469008005044 Zn2+ binding site [ion binding]; other site 469008005045 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 469008005046 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008005047 active site 469008005048 catalytic tetrad [active] 469008005049 Predicted Fe-S protein [General function prediction only]; Region: COG3313 469008005050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008005051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008005052 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469008005053 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 469008005054 FMN binding site [chemical binding]; other site 469008005055 active site 469008005056 substrate binding site [chemical binding]; other site 469008005057 catalytic residue [active] 469008005058 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008005059 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 469008005060 dimer interface [polypeptide binding]; other site 469008005061 active site 469008005062 metal binding site [ion binding]; metal-binding site 469008005063 glutathione binding site [chemical binding]; other site 469008005064 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 469008005065 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 469008005066 dimer interface [polypeptide binding]; other site 469008005067 catalytic site [active] 469008005068 putative active site [active] 469008005069 putative substrate binding site [chemical binding]; other site 469008005070 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 469008005071 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 469008005072 ATP binding site [chemical binding]; other site 469008005073 putative Mg++ binding site [ion binding]; other site 469008005074 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 469008005075 nucleotide binding region [chemical binding]; other site 469008005076 ATP-binding site [chemical binding]; other site 469008005077 DEAD/H associated; Region: DEAD_assoc; pfam08494 469008005078 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 469008005079 putative GSH binding site [chemical binding]; other site 469008005080 catalytic residues [active] 469008005081 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 469008005082 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008005083 superoxide dismutase; Provisional; Region: PRK10543 469008005084 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 469008005085 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 469008005086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008005088 putative substrate translocation pore; other site 469008005089 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 469008005090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008005091 DNA binding site [nucleotide binding] 469008005092 domain linker motif; other site 469008005093 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 469008005094 dimerization interface [polypeptide binding]; other site 469008005095 ligand binding site [chemical binding]; other site 469008005096 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008005097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005098 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 469008005099 dimerization interface [polypeptide binding]; other site 469008005100 putative transporter; Provisional; Region: PRK11043 469008005101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005102 putative substrate translocation pore; other site 469008005103 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 469008005104 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 469008005105 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 469008005106 S-adenosylmethionine binding site [chemical binding]; other site 469008005107 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 469008005108 Lumazine binding domain; Region: Lum_binding; pfam00677 469008005109 Lumazine binding domain; Region: Lum_binding; pfam00677 469008005110 multidrug efflux protein; Reviewed; Region: PRK01766 469008005111 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 469008005112 cation binding site [ion binding]; other site 469008005113 hypothetical protein; Provisional; Region: PRK09945 469008005114 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 469008005115 putative monooxygenase; Provisional; Region: PRK11118 469008005116 hypothetical protein; Provisional; Region: PRK09897 469008005117 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 469008005118 hypothetical protein; Provisional; Region: PRK09946 469008005119 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 469008005120 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 469008005121 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 469008005122 hypothetical protein; Provisional; Region: PRK09947 469008005123 putative oxidoreductase; Provisional; Region: PRK09849 469008005124 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 469008005125 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 469008005126 hypothetical protein; Provisional; Region: PRK09898 469008005127 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 469008005128 hypothetical protein; Provisional; Region: PRK10292 469008005129 pyruvate kinase; Provisional; Region: PRK09206 469008005130 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 469008005131 domain interfaces; other site 469008005132 active site 469008005133 murein lipoprotein; Provisional; Region: PRK15396 469008005134 L,D-transpeptidase; Provisional; Region: PRK10190 469008005135 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008005136 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008005137 cysteine desufuration protein SufE; Provisional; Region: PRK09296 469008005138 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 469008005139 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 469008005140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008005141 catalytic residue [active] 469008005142 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 469008005143 FeS assembly protein SufD; Region: sufD; TIGR01981 469008005144 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 469008005145 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 469008005146 Walker A/P-loop; other site 469008005147 ATP binding site [chemical binding]; other site 469008005148 Q-loop/lid; other site 469008005149 ABC transporter signature motif; other site 469008005150 Walker B; other site 469008005151 D-loop; other site 469008005152 H-loop/switch region; other site 469008005153 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 469008005154 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 469008005155 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 469008005156 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 469008005157 CoenzymeA binding site [chemical binding]; other site 469008005158 subunit interaction site [polypeptide binding]; other site 469008005159 PHB binding site; other site 469008005160 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469008005161 FAD binding domain; Region: FAD_binding_4; pfam01565 469008005162 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469008005163 putative inner membrane protein; Provisional; Region: PRK10983 469008005164 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008005165 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 469008005167 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005168 putative substrate translocation pore; other site 469008005169 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 469008005170 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469008005171 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469008005172 shikimate binding site; other site 469008005173 NAD(P) binding site [chemical binding]; other site 469008005174 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 469008005175 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 469008005176 active site 469008005177 catalytic residue [active] 469008005178 dimer interface [polypeptide binding]; other site 469008005179 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 469008005180 Coenzyme A transferase; Region: CoA_trans; smart00882 469008005181 Coenzyme A transferase; Region: CoA_trans; cl17247 469008005182 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 469008005183 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 469008005184 active site 469008005185 Cupin domain; Region: Cupin_2; pfam07883 469008005186 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008005187 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 469008005188 Ligand binding site [chemical binding]; other site 469008005189 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008005190 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 469008005191 Electron transfer flavoprotein domain; Region: ETF; smart00893 469008005192 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008005193 oxidoreductase; Provisional; Region: PRK10015 469008005194 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469008005195 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 469008005196 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 469008005197 acyl-activating enzyme (AAE) consensus motif; other site 469008005198 putative AMP binding site [chemical binding]; other site 469008005199 putative active site [active] 469008005200 putative CoA binding site [chemical binding]; other site 469008005201 phosphoenolpyruvate synthase; Validated; Region: PRK06464 469008005202 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469008005203 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008005204 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008005205 PEP synthetase regulatory protein; Provisional; Region: PRK05339 469008005206 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 469008005207 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008005208 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 469008005209 Uncharacterized conserved protein [Function unknown]; Region: COG0397 469008005210 hypothetical protein; Validated; Region: PRK00029 469008005212 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008005213 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 469008005214 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008005215 Walker A/P-loop; other site 469008005216 ATP binding site [chemical binding]; other site 469008005217 Q-loop/lid; other site 469008005218 ABC transporter signature motif; other site 469008005219 Walker B; other site 469008005220 D-loop; other site 469008005221 H-loop/switch region; other site 469008005222 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 469008005223 catalytic residues [active] 469008005224 dimer interface [polypeptide binding]; other site 469008005225 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469008005226 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 469008005227 ABC-ATPase subunit interface; other site 469008005228 dimer interface [polypeptide binding]; other site 469008005229 putative PBP binding regions; other site 469008005230 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 469008005231 IHF dimer interface [polypeptide binding]; other site 469008005232 IHF - DNA interface [nucleotide binding]; other site 469008005233 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 469008005234 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 469008005235 putative tRNA-binding site [nucleotide binding]; other site 469008005236 B3/4 domain; Region: B3_4; pfam03483 469008005237 tRNA synthetase B5 domain; Region: B5; smart00874 469008005238 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 469008005239 dimer interface [polypeptide binding]; other site 469008005240 motif 1; other site 469008005241 motif 3; other site 469008005242 motif 2; other site 469008005243 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 469008005244 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 469008005245 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 469008005246 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 469008005247 dimer interface [polypeptide binding]; other site 469008005248 motif 1; other site 469008005249 active site 469008005250 motif 2; other site 469008005251 motif 3; other site 469008005252 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 469008005253 23S rRNA binding site [nucleotide binding]; other site 469008005254 L21 binding site [polypeptide binding]; other site 469008005255 L13 binding site [polypeptide binding]; other site 469008005256 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 469008005257 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 469008005258 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 469008005259 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 469008005260 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 469008005261 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 469008005262 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 469008005263 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 469008005264 active site 469008005265 dimer interface [polypeptide binding]; other site 469008005266 motif 1; other site 469008005267 motif 2; other site 469008005268 motif 3; other site 469008005269 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 469008005270 anticodon binding site; other site 469008005273 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 469008005274 6-phosphofructokinase 2; Provisional; Region: PRK10294 469008005275 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 469008005276 putative substrate binding site [chemical binding]; other site 469008005277 putative ATP binding site [chemical binding]; other site 469008005278 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 469008005279 Phosphotransferase enzyme family; Region: APH; pfam01636 469008005280 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 469008005281 active site 469008005282 ATP binding site [chemical binding]; other site 469008005283 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 469008005284 YniB-like protein; Region: YniB; pfam14002 469008005285 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 469008005286 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469008005287 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 469008005288 motif II; other site 469008005289 inner membrane protein; Provisional; Region: PRK11648 469008005290 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 469008005291 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008005292 cell division modulator; Provisional; Region: PRK10113 469008005293 hydroperoxidase II; Provisional; Region: katE; PRK11249 469008005294 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 469008005295 tetramer interface [polypeptide binding]; other site 469008005296 heme binding pocket [chemical binding]; other site 469008005297 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 469008005298 domain interactions; other site 469008005299 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 469008005300 putative active site [active] 469008005301 YdjC motif; other site 469008005302 Mg binding site [ion binding]; other site 469008005303 putative homodimer interface [polypeptide binding]; other site 469008005304 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 469008005305 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 469008005306 NAD binding site [chemical binding]; other site 469008005307 sugar binding site [chemical binding]; other site 469008005308 divalent metal binding site [ion binding]; other site 469008005309 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008005310 dimer interface [polypeptide binding]; other site 469008005311 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 469008005312 Cupin domain; Region: Cupin_2; pfam07883 469008005313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008005314 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 469008005315 methionine cluster; other site 469008005316 active site 469008005317 phosphorylation site [posttranslational modification] 469008005318 metal binding site [ion binding]; metal-binding site 469008005319 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 469008005320 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 469008005321 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 469008005322 active site 469008005323 P-loop; other site 469008005324 phosphorylation site [posttranslational modification] 469008005325 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 469008005326 NAD+ synthetase; Region: nadE; TIGR00552 469008005327 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 469008005328 homodimer interface [polypeptide binding]; other site 469008005329 NAD binding pocket [chemical binding]; other site 469008005330 ATP binding pocket [chemical binding]; other site 469008005331 Mg binding site [ion binding]; other site 469008005332 active-site loop [active] 469008005333 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 469008005334 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469008005335 GIY-YIG motif/motif A; other site 469008005336 active site 469008005337 catalytic site [active] 469008005338 putative DNA binding site [nucleotide binding]; other site 469008005339 metal binding site [ion binding]; metal-binding site 469008005340 hypothetical protein; Provisional; Region: PRK11396 469008005341 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 469008005342 dimer interface [polypeptide binding]; other site 469008005343 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 469008005344 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 469008005345 putative active site [active] 469008005346 Zn binding site [ion binding]; other site 469008005347 succinylarginine dihydrolase; Provisional; Region: PRK13281 469008005348 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 469008005349 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 469008005350 NAD(P) binding site [chemical binding]; other site 469008005351 catalytic residues [active] 469008005352 arginine succinyltransferase; Provisional; Region: PRK10456 469008005353 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 469008005354 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 469008005355 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 469008005356 inhibitor-cofactor binding pocket; inhibition site 469008005357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008005358 catalytic residue [active] 469008005359 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 469008005360 putative catalytic site [active] 469008005361 putative phosphate binding site [ion binding]; other site 469008005362 active site 469008005363 metal binding site A [ion binding]; metal-binding site 469008005364 DNA binding site [nucleotide binding] 469008005365 putative AP binding site [nucleotide binding]; other site 469008005366 putative metal binding site B [ion binding]; other site 469008005367 Uncharacterized conserved protein [Function unknown]; Region: COG0398 469008005368 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008005369 Uncharacterized conserved protein [Function unknown]; Region: COG0398 469008005370 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008005371 Uncharacterized conserved protein [Function unknown]; Region: COG2128 469008005372 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 469008005373 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 469008005374 hypothetical protein; Provisional; Region: PRK11622 469008005375 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 469008005376 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 469008005377 dimer interface [polypeptide binding]; other site 469008005378 conserved gate region; other site 469008005379 putative PBP binding loops; other site 469008005380 ABC-ATPase subunit interface; other site 469008005381 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 469008005382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008005383 Walker A/P-loop; other site 469008005384 ATP binding site [chemical binding]; other site 469008005385 Q-loop/lid; other site 469008005386 ABC transporter signature motif; other site 469008005387 Walker B; other site 469008005388 D-loop; other site 469008005389 H-loop/switch region; other site 469008005390 Rhodanese Homology Domain; Region: RHOD; smart00450 469008005391 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 469008005392 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 469008005393 active site residue [active] 469008005394 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 469008005395 active site residue [active] 469008005396 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469008005397 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 469008005398 active site 469008005399 8-oxo-dGMP binding site [chemical binding]; other site 469008005400 nudix motif; other site 469008005401 metal binding site [ion binding]; metal-binding site 469008005402 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 469008005403 glutamate dehydrogenase; Provisional; Region: PRK09414 469008005404 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 469008005405 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 469008005406 NAD(P) binding site [chemical binding]; other site 469008005407 hypothetical protein; Provisional; Region: PRK11380 469008005408 DNA topoisomerase III; Provisional; Region: PRK07726 469008005409 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 469008005410 active site 469008005411 putative interdomain interaction site [polypeptide binding]; other site 469008005412 putative metal-binding site [ion binding]; other site 469008005413 putative nucleotide binding site [chemical binding]; other site 469008005414 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 469008005415 domain I; other site 469008005416 DNA binding groove [nucleotide binding] 469008005417 phosphate binding site [ion binding]; other site 469008005418 domain II; other site 469008005419 domain III; other site 469008005420 nucleotide binding site [chemical binding]; other site 469008005421 catalytic site [active] 469008005422 domain IV; other site 469008005423 selenophosphate synthetase; Provisional; Region: PRK00943 469008005424 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 469008005425 dimerization interface [polypeptide binding]; other site 469008005426 putative ATP binding site [chemical binding]; other site 469008005427 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 469008005428 putative FMN binding site [chemical binding]; other site 469008005429 protease 4; Provisional; Region: PRK10949 469008005430 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 469008005431 tandem repeat interface [polypeptide binding]; other site 469008005432 oligomer interface [polypeptide binding]; other site 469008005433 active site residues [active] 469008005434 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 469008005435 tandem repeat interface [polypeptide binding]; other site 469008005436 oligomer interface [polypeptide binding]; other site 469008005437 active site residues [active] 469008005438 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 469008005439 active site 469008005440 homodimer interface [polypeptide binding]; other site 469008005441 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 469008005442 Isochorismatase family; Region: Isochorismatase; pfam00857 469008005443 catalytic triad [active] 469008005444 metal binding site [ion binding]; metal-binding site 469008005445 conserved cis-peptide bond; other site 469008005446 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 469008005447 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005448 putative substrate translocation pore; other site 469008005449 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005450 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008005451 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008005452 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008005453 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 469008005454 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008005455 active site 469008005456 catalytic tetrad [active] 469008005457 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008005458 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 469008005459 substrate binding site [chemical binding]; other site 469008005460 ATP binding site [chemical binding]; other site 469008005461 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 469008005462 intersubunit interface [polypeptide binding]; other site 469008005463 active site 469008005464 zinc binding site [ion binding]; other site 469008005465 Na+ binding site [ion binding]; other site 469008005466 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008005467 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 469008005468 inhibitor binding site; inhibition site 469008005469 catalytic Zn binding site [ion binding]; other site 469008005470 structural Zn binding site [ion binding]; other site 469008005471 NADP binding site [chemical binding]; other site 469008005472 tetramer interface [polypeptide binding]; other site 469008005473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005475 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008005476 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 469008005477 putative NAD(P) binding site [chemical binding]; other site 469008005478 catalytic Zn binding site [ion binding]; other site 469008005479 structural Zn binding site [ion binding]; other site 469008005480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 469008005481 methionine sulfoxide reductase B; Provisional; Region: PRK00222 469008005482 SelR domain; Region: SelR; pfam01641 469008005483 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 469008005484 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008005485 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008005486 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 469008005487 active site 469008005488 phosphate binding residues; other site 469008005489 catalytic residues [active] 469008005490 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 469008005491 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008005492 active site 469008005493 catalytic tetrad [active] 469008005494 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 469008005496 hypothetical protein; Provisional; Region: PRK05325 469008005497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005499 metal binding site [ion binding]; metal-binding site 469008005500 active site 469008005501 I-site; other site 469008005502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005504 metal binding site [ion binding]; metal-binding site 469008005505 active site 469008005506 I-site; other site 469008005507 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 469008005508 putative deacylase active site [active] 469008005509 Predicted membrane protein [Function unknown]; Region: COG2707 469008005510 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008005511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008005512 cyanate transporter; Region: CynX; TIGR00896 469008005513 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005514 Uncharacterized conserved protein [Function unknown]; Region: COG3189 469008005515 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 469008005516 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469008005517 Domain of unknown function (DUF333); Region: DUF333; pfam03891 469008005518 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 469008005519 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008005520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008005521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008005522 metal binding site [ion binding]; metal-binding site 469008005523 active site 469008005524 I-site; other site 469008005525 hypothetical protein; Provisional; Region: PRK10457 469008005526 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 469008005528 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008005529 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008005531 leucine export protein LeuE; Provisional; Region: PRK10958 469008005532 transcriptional activator TtdR; Provisional; Region: PRK09801 469008005533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005534 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 469008005535 putative effector binding pocket; other site 469008005536 putative dimerization interface [polypeptide binding]; other site 469008005537 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 469008005538 tartrate dehydrogenase; Region: TTC; TIGR02089 469008005539 putative transporter; Provisional; Region: PRK09950 469008005540 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 469008005541 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 469008005542 [2Fe-2S] cluster binding site [ion binding]; other site 469008005543 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 469008005544 putative alpha subunit interface [polypeptide binding]; other site 469008005545 putative active site [active] 469008005546 putative substrate binding site [chemical binding]; other site 469008005547 Fe binding site [ion binding]; other site 469008005548 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 469008005549 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 469008005550 FMN-binding pocket [chemical binding]; other site 469008005551 flavin binding motif; other site 469008005552 phosphate binding motif [ion binding]; other site 469008005553 beta-alpha-beta structure motif; other site 469008005554 NAD binding pocket [chemical binding]; other site 469008005555 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 469008005556 catalytic loop [active] 469008005557 iron binding site [ion binding]; other site 469008005558 ribonuclease D; Provisional; Region: PRK10829 469008005559 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 469008005560 catalytic site [active] 469008005561 putative active site [active] 469008005562 putative substrate binding site [chemical binding]; other site 469008005563 Helicase and RNase D C-terminal; Region: HRDC; smart00341 469008005564 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 469008005565 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 469008005566 acyl-activating enzyme (AAE) consensus motif; other site 469008005567 putative AMP binding site [chemical binding]; other site 469008005568 putative active site [active] 469008005569 putative CoA binding site [chemical binding]; other site 469008005570 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 469008005571 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 469008005572 Glycoprotease family; Region: Peptidase_M22; pfam00814 469008005573 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 469008005574 DEAD/DEAH box helicase; Region: DEAD; pfam00270 469008005575 DEAD_2; Region: DEAD_2; pfam06733 469008005576 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469008005577 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 469008005578 homotrimer interaction site [polypeptide binding]; other site 469008005579 putative active site [active] 469008005580 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 469008005581 hypothetical protein; Provisional; Region: PRK05114 469008005582 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 469008005583 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469008005584 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 469008005585 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 469008005586 putative active site [active] 469008005587 putative CoA binding site [chemical binding]; other site 469008005588 nudix motif; other site 469008005589 metal binding site [ion binding]; metal-binding site 469008005590 L-serine deaminase; Provisional; Region: PRK15023 469008005591 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008005592 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008005593 phage resistance protein; Provisional; Region: PRK10551 469008005594 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008005595 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 469008005596 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008005597 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469008005598 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 469008005599 Transporter associated domain; Region: CorC_HlyC; smart01091 469008005600 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 469008005601 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 469008005602 active pocket/dimerization site; other site 469008005603 active site 469008005604 phosphorylation site [posttranslational modification] 469008005605 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 469008005606 active site 469008005607 phosphorylation site [posttranslational modification] 469008005608 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 469008005609 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 469008005610 Predicted membrane protein [Function unknown]; Region: COG4811 469008005611 hypothetical protein; Provisional; Region: PRK11469 469008005612 Domain of unknown function DUF; Region: DUF204; pfam02659 469008005613 Domain of unknown function DUF; Region: DUF204; pfam02659 469008005614 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 469008005615 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 469008005616 S-adenosylmethionine binding site [chemical binding]; other site 469008005617 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 469008005618 DNA-binding site [nucleotide binding]; DNA binding site 469008005619 RNA-binding motif; other site 469008005620 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 469008005621 YebO-like protein; Region: YebO; pfam13974 469008005622 PhoPQ regulatory protein; Provisional; Region: PRK10299 469008005623 YobH-like protein; Region: YobH; pfam13996 469008005624 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 469008005625 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 469008005626 dimerization interface [polypeptide binding]; other site 469008005627 putative Zn2+ binding site [ion binding]; other site 469008005628 putative DNA binding site [nucleotide binding]; other site 469008005629 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008005630 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005631 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008005632 putative substrate translocation pore; other site 469008005633 Predicted integral membrane protein [Function unknown]; Region: COG5521 469008005634 heat shock protein HtpX; Provisional; Region: PRK05457 469008005635 carboxy-terminal protease; Provisional; Region: PRK11186 469008005636 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 469008005637 protein binding site [polypeptide binding]; other site 469008005638 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 469008005639 Catalytic dyad [active] 469008005640 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 469008005641 ProP expression regulator; Provisional; Region: PRK04950 469008005642 ProQ/FINO family; Region: ProQ; pfam04352 469008005643 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 469008005644 GAF domain; Region: GAF_2; pfam13185 469008005645 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 469008005646 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008005647 Paraquat-inducible protein A; Region: PqiA; pfam04403 469008005648 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 469008005649 mce related protein; Region: MCE; pfam02470 469008005650 mce related protein; Region: MCE; pfam02470 469008005651 mce related protein; Region: MCE; pfam02470 469008005652 mce related protein; Region: MCE; pfam02470 469008005653 mce related protein; Region: MCE; pfam02470 469008005654 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 469008005655 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 469008005656 S-adenosylmethionine binding site [chemical binding]; other site 469008005657 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 469008005658 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 469008005659 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 469008005660 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 469008005661 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008005662 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 469008005663 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 469008005664 hypothetical protein; Provisional; Region: PRK10301 469008005665 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 469008005666 Predicted amidohydrolase [General function prediction only]; Region: COG0388 469008005667 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 469008005668 exodeoxyribonuclease X; Provisional; Region: PRK07983 469008005669 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 469008005670 active site 469008005671 catalytic site [active] 469008005672 substrate binding site [chemical binding]; other site 469008005673 protease 2; Provisional; Region: PRK10115 469008005674 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008005675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 469008005676 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 469008005677 putative metal binding site [ion binding]; other site 469008005678 hypothetical protein; Provisional; Region: PRK13680 469008005679 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 469008005680 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 469008005681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008005682 ATP-grasp domain; Region: ATP-grasp; pfam02222 469008005683 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 469008005684 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008005685 active site 469008005686 intersubunit interface [polypeptide binding]; other site 469008005687 catalytic residue [active] 469008005688 phosphogluconate dehydratase; Validated; Region: PRK09054 469008005689 6-phosphogluconate dehydratase; Region: edd; TIGR01196 469008005690 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 469008005691 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 469008005692 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 469008005693 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 469008005694 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008005695 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 469008005696 putative active site [active] 469008005697 pyruvate kinase; Provisional; Region: PRK05826 469008005698 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 469008005699 domain interfaces; other site 469008005700 active site 469008005701 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008005702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008005703 putative acyl-acceptor binding pocket; other site 469008005704 putative peptidase; Provisional; Region: PRK11649 469008005705 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 469008005706 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008005707 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008005708 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 469008005709 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 469008005710 metal binding site [ion binding]; metal-binding site 469008005711 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 469008005712 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469008005713 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469008005714 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 469008005715 ABC-ATPase subunit interface; other site 469008005716 dimer interface [polypeptide binding]; other site 469008005717 putative PBP binding regions; other site 469008005718 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 469008005719 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 469008005720 Walker A motif; other site 469008005721 ATP binding site [chemical binding]; other site 469008005722 Walker B motif; other site 469008005723 arginine finger; other site 469008005724 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 469008005725 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 469008005726 RuvA N terminal domain; Region: RuvA_N; pfam01330 469008005727 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 469008005728 hypothetical protein; Provisional; Region: PRK11470 469008005729 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 469008005730 active site 469008005731 putative DNA-binding cleft [nucleotide binding]; other site 469008005732 dimer interface [polypeptide binding]; other site 469008005733 hypothetical protein; Validated; Region: PRK00110 469008005734 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 469008005735 nudix motif; other site 469008005736 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 469008005737 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 469008005738 dimer interface [polypeptide binding]; other site 469008005739 anticodon binding site; other site 469008005740 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 469008005741 homodimer interface [polypeptide binding]; other site 469008005742 motif 1; other site 469008005743 active site 469008005744 motif 2; other site 469008005745 GAD domain; Region: GAD; pfam02938 469008005746 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 469008005747 motif 3; other site 469008005748 Isochorismatase family; Region: Isochorismatase; pfam00857 469008005749 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 469008005750 catalytic triad [active] 469008005751 conserved cis-peptide bond; other site 469008005752 hypothetical protein; Provisional; Region: PRK10302 469008005753 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 469008005754 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 469008005755 S-adenosylmethionine binding site [chemical binding]; other site 469008005756 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 469008005757 S-adenosylmethionine binding site [chemical binding]; other site 469008005758 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008005759 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 469008005760 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 469008005761 molybdopterin cofactor binding site [chemical binding]; other site 469008005762 substrate binding site [chemical binding]; other site 469008005763 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 469008005764 molybdopterin cofactor binding site; other site 469008005765 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 469008005766 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 469008005767 CutC family; Region: CutC; cl01218 469008005768 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 469008005769 putative metal binding site [ion binding]; other site 469008005770 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 469008005771 arginyl-tRNA synthetase; Region: argS; TIGR00456 469008005772 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 469008005773 active site 469008005774 HIGH motif; other site 469008005775 KMSK motif region; other site 469008005776 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 469008005777 tRNA binding surface [nucleotide binding]; other site 469008005778 anticodon binding site; other site 469008005779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 469008005780 Flagellar protein FlhE; Region: FlhE; pfam06366 469008005781 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 469008005782 FHIPEP family; Region: FHIPEP; pfam00771 469008005783 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 469008005784 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 469008005785 chemotaxis regulator CheZ; Provisional; Region: PRK11166 469008005786 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 469008005787 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 469008005788 active site 469008005789 phosphorylation site [posttranslational modification] 469008005790 intermolecular recognition site; other site 469008005791 dimerization interface [polypeptide binding]; other site 469008005792 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 469008005793 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 469008005794 active site 469008005795 phosphorylation site [posttranslational modification] 469008005796 intermolecular recognition site; other site 469008005797 dimerization interface [polypeptide binding]; other site 469008005798 CheB methylesterase; Region: CheB_methylest; pfam01339 469008005799 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 469008005800 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 469008005801 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 469008005802 S-adenosylmethionine binding site [chemical binding]; other site 469008005803 methyl-accepting protein IV; Provisional; Region: PRK09793 469008005804 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008005805 dimer interface [polypeptide binding]; other site 469008005806 ligand binding site [chemical binding]; other site 469008005807 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 469008005808 dimerization interface [polypeptide binding]; other site 469008005809 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008005810 dimer interface [polypeptide binding]; other site 469008005811 putative CheW interface [polypeptide binding]; other site 469008005812 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 469008005813 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008005814 dimer interface [polypeptide binding]; other site 469008005815 ligand binding site [chemical binding]; other site 469008005816 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 469008005817 dimerization interface [polypeptide binding]; other site 469008005818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008005819 dimer interface [polypeptide binding]; other site 469008005820 putative CheW interface [polypeptide binding]; other site 469008005821 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 469008005822 putative CheA interaction surface; other site 469008005823 chemotaxis protein CheA; Provisional; Region: PRK10547 469008005824 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 469008005825 putative binding surface; other site 469008005826 active site 469008005827 CheY binding; Region: CheY-binding; pfam09078 469008005828 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 469008005829 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 469008005830 ATP binding site [chemical binding]; other site 469008005831 Mg2+ binding site [ion binding]; other site 469008005832 G-X-G motif; other site 469008005833 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 469008005834 flagellar motor protein MotB; Validated; Region: motB; PRK09041 469008005835 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 469008005836 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008005837 ligand binding site [chemical binding]; other site 469008005838 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 469008005839 flagellar motor protein MotA; Validated; Region: PRK09110 469008005840 transcriptional activator FlhC; Provisional; Region: PRK12722 469008005841 transcriptional activator FlhD; Provisional; Region: PRK02909 469008005842 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 469008005843 Ligand Binding Site [chemical binding]; other site 469008005844 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 469008005845 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 469008005846 active site 469008005847 homotetramer interface [polypeptide binding]; other site 469008005848 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 469008005849 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 469008005850 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 469008005851 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008005852 TM-ABC transporter signature motif; other site 469008005853 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 469008005854 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008005855 Walker A/P-loop; other site 469008005856 ATP binding site [chemical binding]; other site 469008005857 Q-loop/lid; other site 469008005858 ABC transporter signature motif; other site 469008005859 Walker B; other site 469008005860 D-loop; other site 469008005861 H-loop/switch region; other site 469008005862 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008005863 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 469008005864 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 469008005865 ligand binding site [chemical binding]; other site 469008005866 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 469008005867 Ferritin-like domain; Region: Ferritin; pfam00210 469008005868 ferroxidase diiron center [ion binding]; other site 469008005869 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 469008005870 YecR-like lipoprotein; Region: YecR; pfam13992 469008005871 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 469008005872 Ferritin-like domain; Region: Ferritin; pfam00210 469008005873 ferroxidase diiron center [ion binding]; other site 469008005874 probable metal-binding protein; Region: matur_matur; TIGR03853 469008005875 tyrosine transporter TyrP; Provisional; Region: PRK15132 469008005876 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008005877 hypothetical protein; Provisional; Region: PRK10396 469008005878 yecA family protein; Region: ygfB_yecA; TIGR02292 469008005879 SEC-C motif; Region: SEC-C; pfam02810 469008005880 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 469008005881 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 469008005882 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469008005883 GIY-YIG motif/motif A; other site 469008005884 active site 469008005885 catalytic site [active] 469008005886 putative DNA binding site [nucleotide binding]; other site 469008005887 metal binding site [ion binding]; metal-binding site 469008005888 UvrB/uvrC motif; Region: UVR; pfam02151 469008005889 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 469008005890 Helix-hairpin-helix motif; Region: HHH; pfam00633 469008005892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008005893 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008005894 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008005895 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008005896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008005897 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008005898 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008005899 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008005900 heat shock protein (Hsp) 31, disrupted by IS element, C-ter fragment 469008005901 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 469008005902 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 469008005903 dimer interface [polypeptide binding]; other site 469008005904 phosphorylation site [posttranslational modification] 469008005905 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 469008005906 ATP binding site [chemical binding]; other site 469008005907 Mg2+ binding site [ion binding]; other site 469008005908 G-X-G motif; other site 469008005909 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 469008005910 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 469008005911 active site 469008005912 phosphorylation site [posttranslational modification] 469008005913 intermolecular recognition site; other site 469008005914 dimerization interface [polypeptide binding]; other site 469008005915 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 469008005916 DNA binding site [nucleotide binding] 469008005917 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 469008005918 active site 469008005919 homotetramer interface [polypeptide binding]; other site 469008005920 TMAO/DMSO reductase; Reviewed; Region: PRK05363 469008005921 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 469008005922 Moco binding site; other site 469008005923 metal coordination site [ion binding]; other site 469008005924 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 469008005925 zinc/cadmium-binding protein; Provisional; Region: PRK10306 469008005926 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 469008005927 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 469008005928 putative invasin; Provisional; Region: PRK10177 469008005929 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 469008005930 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005931 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005932 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005933 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005934 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005935 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005936 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005937 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005938 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005939 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005940 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005941 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 469008005942 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 469008005945 shikimate transporter; Provisional; Region: PRK09952 469008005946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008005947 putative substrate translocation pore; other site 469008005948 AMP nucleosidase; Provisional; Region: PRK08292 469008005949 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 469008005950 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 469008005951 hypothetical protein; Provisional; Region: PRK12378 469008005952 MATE family multidrug exporter; Provisional; Region: PRK10189 469008005953 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469008005954 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 469008005955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005956 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 469008005957 putative substrate binding site [chemical binding]; other site 469008005958 dimerization interface [polypeptide binding]; other site 469008005959 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 469008005960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008005961 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 469008005962 putative dimerization interface [polypeptide binding]; other site 469008005963 L,D-transpeptidase; Provisional; Region: PRK10190 469008005964 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 469008005965 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 469008005966 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 469008005967 putative dimer interface [polypeptide binding]; other site 469008005968 active site pocket [active] 469008005969 putative cataytic base [active] 469008005970 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 469008005971 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 469008005972 homotrimer interface [polypeptide binding]; other site 469008005973 Walker A motif; other site 469008005974 GTP binding site [chemical binding]; other site 469008005975 Walker B motif; other site 469008005976 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 469008005978 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 469008005979 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469008005980 Switch II region; other site 469008005981 G4 box; other site 469008005982 G5 box; other site 469008005983 hypothetical protein; Provisional; Region: PRK05423 469008005984 Predicted membrane protein [Function unknown]; Region: COG1289 469008005985 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008005986 DNA gyrase inhibitor; Provisional; Region: PRK10016 469008005987 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 469008005988 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469008005989 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 469008005990 exonuclease I; Provisional; Region: sbcB; PRK11779 469008005991 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 469008005992 active site 469008005993 catalytic site [active] 469008005994 substrate binding site [chemical binding]; other site 469008005995 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 469008005996 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 469008005997 CPxP motif; other site 469008005998 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 469008005999 Sulphur transport; Region: Sulf_transp; pfam04143 469008006000 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469008006001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008006002 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008006003 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 469008006004 dimerization interface [polypeptide binding]; other site 469008006005 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008006006 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 469008006007 putative NAD(P) binding site [chemical binding]; other site 469008006008 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 469008006009 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 469008006010 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 469008006011 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 469008006012 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 469008006013 NAD binding site [chemical binding]; other site 469008006014 dimerization interface [polypeptide binding]; other site 469008006015 product binding site; other site 469008006016 substrate binding site [chemical binding]; other site 469008006017 zinc binding site [ion binding]; other site 469008006018 catalytic residues [active] 469008006019 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 469008006020 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 469008006021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006022 homodimer interface [polypeptide binding]; other site 469008006023 catalytic residue [active] 469008006024 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 469008006025 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 469008006026 active site 469008006027 motif I; other site 469008006028 motif II; other site 469008006029 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 469008006030 putative active site pocket [active] 469008006031 4-fold oligomerization interface [polypeptide binding]; other site 469008006032 metal binding residues [ion binding]; metal-binding site 469008006033 3-fold/trimer interface [polypeptide binding]; other site 469008006034 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 469008006035 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 469008006036 putative active site [active] 469008006037 oxyanion strand; other site 469008006038 catalytic triad [active] 469008006039 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 469008006040 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 469008006041 catalytic residues [active] 469008006042 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 469008006043 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 469008006044 substrate binding site [chemical binding]; other site 469008006045 glutamase interaction surface [polypeptide binding]; other site 469008006046 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 469008006047 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 469008006048 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 469008006049 metal binding site [ion binding]; metal-binding site 469008006050 chain length determinant protein WzzB; Provisional; Region: PRK15471 469008006051 Chain length determinant protein; Region: Wzz; pfam02706 469008006052 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 469008006053 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469008006054 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 469008006055 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 469008006056 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008006057 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 469008006058 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 469008006059 phosphomannomutase CpsG; Provisional; Region: PRK15414 469008006060 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 469008006061 active site 469008006062 substrate binding site [chemical binding]; other site 469008006063 metal binding site [ion binding]; metal-binding site 469008006064 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 469008006065 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 469008006066 Substrate binding site; other site 469008006067 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 469008006068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006069 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006070 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006071 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006072 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006074 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006075 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006076 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469008006077 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 469008006078 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469008006079 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 469008006080 ornithine decarboxylase SpeF; Region: ODC_inducible; TIGR04301 469008006081 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 469008006082 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 469008006083 trimer interface [polypeptide binding]; other site 469008006084 active site 469008006085 substrate binding site [chemical binding]; other site 469008006086 CoA binding site [chemical binding]; other site 469008006087 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008006088 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 469008006089 inhibitor-cofactor binding pocket; inhibition site 469008006090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006091 catalytic residue [active] 469008006092 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 469008006093 colanic acid exporter; Provisional; Region: PRK10459 469008006094 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 469008006096 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 469008006097 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 469008006098 NADP binding site [chemical binding]; other site 469008006099 active site 469008006100 putative substrate binding site [chemical binding]; other site 469008006101 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 469008006102 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469008006103 NAD binding site [chemical binding]; other site 469008006104 substrate binding site [chemical binding]; other site 469008006105 homodimer interface [polypeptide binding]; other site 469008006106 active site 469008006107 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469008006108 active site 469008006109 tetramer interface; other site 469008006110 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 469008006111 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 469008006112 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 469008006113 putative ADP-binding pocket [chemical binding]; other site 469008006114 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 469008006115 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 469008006116 colanic acid exporter; Provisional; Region: PRK10459 469008006117 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 469008006118 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 469008006119 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 469008006120 phosphomannomutase CpsG; Provisional; Region: PRK15414 469008006121 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 469008006122 active site 469008006123 substrate binding site [chemical binding]; other site 469008006124 metal binding site [ion binding]; metal-binding site 469008006125 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 469008006126 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 469008006127 Substrate binding site; other site 469008006128 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 469008006129 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 469008006130 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 469008006131 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 469008006132 active site 469008006133 GDP-Mannose binding site [chemical binding]; other site 469008006134 dimer interface [polypeptide binding]; other site 469008006135 modified nudix motif 469008006136 metal binding site [ion binding]; metal-binding site 469008006137 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 469008006138 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 469008006139 NADP binding site [chemical binding]; other site 469008006140 active site 469008006141 putative substrate binding site [chemical binding]; other site 469008006142 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 469008006143 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 469008006144 NADP-binding site; other site 469008006145 homotetramer interface [polypeptide binding]; other site 469008006146 substrate binding site [chemical binding]; other site 469008006147 homodimer interface [polypeptide binding]; other site 469008006148 active site 469008006149 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 469008006150 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 469008006151 putative trimer interface [polypeptide binding]; other site 469008006152 putative active site [active] 469008006153 putative substrate binding site [chemical binding]; other site 469008006154 putative CoA binding site [chemical binding]; other site 469008006155 putative glycosyl transferase; Provisional; Region: PRK10063 469008006156 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 469008006157 metal-binding site 469008006158 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 469008006159 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 469008006160 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 469008006161 putative acyl transferase; Provisional; Region: PRK10191 469008006162 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 469008006163 trimer interface [polypeptide binding]; other site 469008006164 active site 469008006165 substrate binding site [chemical binding]; other site 469008006166 CoA binding site [chemical binding]; other site 469008006167 putative glycosyl transferase; Provisional; Region: PRK10018 469008006168 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 469008006169 active site 469008006170 tyrosine kinase; Provisional; Region: PRK11519 469008006171 Chain length determinant protein; Region: Wzz; pfam02706 469008006172 Chain length determinant protein; Region: Wzz; cl15801 469008006173 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 469008006174 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 469008006175 Low molecular weight phosphatase family; Region: LMWPc; cd00115 469008006176 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 469008006177 active site 469008006178 polysaccharide export protein Wza; Provisional; Region: PRK15078 469008006179 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008006180 SLBB domain; Region: SLBB; pfam10531 469008006181 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008006182 FOG: CBS domain [General function prediction only]; Region: COG0517 469008006183 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 469008006184 Transporter associated domain; Region: CorC_HlyC; smart01091 469008006185 putative assembly protein; Provisional; Region: PRK10833 469008006186 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008006187 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469008006188 trimer interface [polypeptide binding]; other site 469008006189 active site 469008006190 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 469008006191 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 469008006192 ATP-binding site [chemical binding]; other site 469008006193 Sugar specificity; other site 469008006194 Pyrimidine base specificity; other site 469008006195 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 469008006196 putative diguanylate cyclase; Provisional; Region: PRK09776 469008006197 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 469008006198 putative active site [active] 469008006199 heme pocket [chemical binding]; other site 469008006200 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 469008006201 putative active site [active] 469008006202 heme pocket [chemical binding]; other site 469008006203 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 469008006204 putative active site [active] 469008006205 heme pocket [chemical binding]; other site 469008006206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008006207 metal binding site [ion binding]; metal-binding site 469008006208 active site 469008006209 I-site; other site 469008006210 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 469008006211 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 469008006212 AlkA N-terminal domain; Region: AlkA_N; smart01009 469008006213 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008006214 minor groove reading motif; other site 469008006215 helix-hairpin-helix signature motif; other site 469008006216 substrate binding pocket [chemical binding]; other site 469008006217 active site 469008006218 putative chaperone; Provisional; Region: PRK11678 469008006219 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 469008006220 nucleotide binding site [chemical binding]; other site 469008006221 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008006222 SBD interface [polypeptide binding]; other site 469008006223 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 469008006224 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 469008006225 substrate binding site [chemical binding]; other site 469008006226 activation loop (A-loop); other site 469008006227 Y-family of DNA polymerases; Region: PolY; cl12025 469008006228 Protein phosphatase 2C; Region: PP2C_2; pfam13672 469008006229 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 469008006230 metal ion-dependent adhesion site (MIDAS); other site 469008006231 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 469008006232 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008006233 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008006234 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 469008006235 Protein export membrane protein; Region: SecD_SecF; cl14618 469008006236 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 469008006237 putative transporter; Provisional; Region: PRK10504 469008006238 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006239 putative substrate translocation pore; other site 469008006240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006241 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 469008006242 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 469008006243 dimerization interface [polypeptide binding]; other site 469008006244 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 469008006245 dimer interface [polypeptide binding]; other site 469008006246 phosphorylation site [posttranslational modification] 469008006247 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 469008006248 ATP binding site [chemical binding]; other site 469008006249 Mg2+ binding site [ion binding]; other site 469008006250 G-X-G motif; other site 469008006251 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 469008006252 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 469008006253 active site 469008006254 phosphorylation site [posttranslational modification] 469008006255 intermolecular recognition site; other site 469008006256 dimerization interface [polypeptide binding]; other site 469008006257 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 469008006258 DNA binding site [nucleotide binding] 469008006259 Uncharacterized conserved protein [Function unknown]; Region: COG3422 469008006260 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 469008006261 putative protease; Provisional; Region: PRK15452 469008006262 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008006263 lipid kinase; Reviewed; Region: PRK13054 469008006264 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 469008006266 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006267 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006268 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006269 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006271 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006272 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006273 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006275 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 469008006276 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 469008006277 putative NAD(P) binding site [chemical binding]; other site 469008006278 catalytic Zn binding site [ion binding]; other site 469008006279 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 469008006280 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 469008006281 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 469008006282 active site 469008006283 P-loop; other site 469008006284 phosphorylation site [posttranslational modification] 469008006285 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 469008006286 active site 469008006287 phosphorylation site [posttranslational modification] 469008006288 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 469008006289 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 469008006290 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008006291 intersubunit interface [polypeptide binding]; other site 469008006292 active site 469008006293 zinc binding site [ion binding]; other site 469008006294 Na+ binding site [ion binding]; other site 469008006295 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 469008006296 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 469008006297 putative active site; other site 469008006298 catalytic residue [active] 469008006299 nucleoside transporter; Region: 2A0110; TIGR00889 469008006300 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006301 putative substrate translocation pore; other site 469008006302 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 469008006303 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008006304 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 469008006305 substrate binding site [chemical binding]; other site 469008006306 ATP binding site [chemical binding]; other site 469008006307 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 469008006308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008006309 DNA-binding site [nucleotide binding]; DNA binding site 469008006310 UTRA domain; Region: UTRA; pfam07702 469008006311 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 469008006312 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 469008006313 active site 469008006314 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 469008006315 dimer interface [polypeptide binding]; other site 469008006316 substrate binding site [chemical binding]; other site 469008006317 ATP binding site [chemical binding]; other site 469008006318 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 469008006319 substrate binding site [chemical binding]; other site 469008006320 multimerization interface [polypeptide binding]; other site 469008006321 ATP binding site [chemical binding]; other site 469008006322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006323 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006324 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006325 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006326 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006328 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006329 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006331 antiporter inner membrane protein; Provisional; Region: PRK11670 469008006332 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 469008006333 Walker A motif; other site 469008006334 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 469008006335 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 469008006336 active site 469008006337 HIGH motif; other site 469008006338 KMSKS motif; other site 469008006339 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 469008006340 tRNA binding surface [nucleotide binding]; other site 469008006341 anticodon binding site; other site 469008006342 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 469008006343 dimer interface [polypeptide binding]; other site 469008006344 putative tRNA-binding site [nucleotide binding]; other site 469008006345 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469008006346 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 469008006347 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 469008006348 MoxR-like ATPases [General function prediction only]; Region: COG0714 469008006349 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 469008006350 Walker A motif; other site 469008006351 ATP binding site [chemical binding]; other site 469008006352 Walker B motif; other site 469008006353 arginine finger; other site 469008006354 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 469008006355 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 469008006356 metal ion-dependent adhesion site (MIDAS); other site 469008006357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 469008006358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 469008006359 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469008006360 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469008006361 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 469008006362 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 469008006363 active site 469008006364 phosphorylation site [posttranslational modification] 469008006365 intermolecular recognition site; other site 469008006366 dimerization interface [polypeptide binding]; other site 469008006367 LytTr DNA-binding domain; Region: LytTR; pfam04397 469008006368 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469008006369 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469008006370 GAF domain; Region: GAF; pfam01590 469008006371 Histidine kinase; Region: His_kinase; pfam06580 469008006372 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 469008006373 ATP binding site [chemical binding]; other site 469008006374 Mg2+ binding site [ion binding]; other site 469008006375 G-X-G motif; other site 469008006376 transcriptional regulator MirA; Provisional; Region: PRK15043 469008006377 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 469008006378 DNA binding residues [nucleotide binding] 469008006379 hypothetical protein; Provisional; Region: PRK13681 469008006380 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469008006381 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 469008006382 dimer interface [polypeptide binding]; other site 469008006383 conserved gate region; other site 469008006384 putative PBP binding loops; other site 469008006385 ABC-ATPase subunit interface; other site 469008006386 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 469008006387 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 469008006388 Walker A/P-loop; other site 469008006389 ATP binding site [chemical binding]; other site 469008006390 Q-loop/lid; other site 469008006391 ABC transporter signature motif; other site 469008006392 Walker B; other site 469008006393 D-loop; other site 469008006394 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 469008006395 H-loop/switch region; other site 469008006396 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 469008006397 dimer interface [polypeptide binding]; other site 469008006398 conserved gate region; other site 469008006399 ABC-ATPase subunit interface; other site 469008006400 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 469008006401 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 469008006402 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 469008006403 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 469008006404 D-lactate dehydrogenase; Provisional; Region: PRK11183 469008006405 FAD binding domain; Region: FAD_binding_4; pfam01565 469008006406 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 469008006407 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 469008006408 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 469008006409 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 469008006410 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008006411 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 469008006412 oxidoreductase; Provisional; Region: PRK12743 469008006413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008006414 NAD(P) binding site [chemical binding]; other site 469008006415 active site 469008006416 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 469008006417 Outer membrane efflux protein; Region: OEP; pfam02321 469008006418 Outer membrane efflux protein; Region: OEP; pfam02321 469008006419 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 469008006420 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 469008006421 FMN binding site [chemical binding]; other site 469008006422 active site 469008006423 catalytic residues [active] 469008006424 substrate binding site [chemical binding]; other site 469008006425 hypothetical protein; Provisional; Region: PRK01821 469008006426 hypothetical protein; Provisional; Region: PRK10711 469008006427 cytidine deaminase; Provisional; Region: PRK09027 469008006428 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 469008006429 active site 469008006430 catalytic motif [active] 469008006431 Zn binding site [ion binding]; other site 469008006432 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 469008006433 active site 469008006434 catalytic motif [active] 469008006435 Zn binding site [ion binding]; other site 469008006436 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 469008006437 putative active site [active] 469008006438 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 469008006439 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 469008006440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008006441 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008006442 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 469008006443 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 469008006444 homodimer interface [polypeptide binding]; other site 469008006445 active site 469008006446 FMN binding site [chemical binding]; other site 469008006447 substrate binding site [chemical binding]; other site 469008006448 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006449 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008006450 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 469008006451 TM-ABC transporter signature motif; other site 469008006452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008006453 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 469008006454 Walker A/P-loop; other site 469008006455 ATP binding site [chemical binding]; other site 469008006456 Q-loop/lid; other site 469008006457 ABC transporter signature motif; other site 469008006458 Walker B; other site 469008006459 D-loop; other site 469008006460 H-loop/switch region; other site 469008006461 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008006463 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 469008006464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008006465 DNA binding site [nucleotide binding] 469008006466 domain linker motif; other site 469008006467 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 469008006468 dimerization interface (closed form) [polypeptide binding]; other site 469008006469 ligand binding site [chemical binding]; other site 469008006470 Predicted membrane protein [Function unknown]; Region: COG2311 469008006471 hypothetical protein; Provisional; Region: PRK10835 469008006472 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 469008006473 homodecamer interface [polypeptide binding]; other site 469008006474 GTP cyclohydrolase I; Provisional; Region: PLN03044 469008006475 active site 469008006476 putative catalytic site residues [active] 469008006477 zinc binding site [ion binding]; other site 469008006478 GTP-CH-I/GFRP interaction surface; other site 469008006479 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 469008006480 S-formylglutathione hydrolase; Region: PLN02442 469008006481 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 469008006482 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 469008006483 N-terminal plug; other site 469008006484 ligand-binding site [chemical binding]; other site 469008006485 lysine transporter; Provisional; Region: PRK10836 469008006486 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 469008006487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008006488 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 469008006489 putative dimerization interface [polypeptide binding]; other site 469008006490 conserved hypothetical integral membrane protein; Region: TIGR00698 469008006491 endonuclease IV; Provisional; Region: PRK01060 469008006492 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 469008006493 AP (apurinic/apyrimidinic) site pocket; other site 469008006494 DNA interaction; other site 469008006495 Metal-binding active site; metal-binding site 469008006496 putative kinase; Provisional; Region: PRK09954 469008006497 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 469008006498 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 469008006499 substrate binding site [chemical binding]; other site 469008006500 ATP binding site [chemical binding]; other site 469008006501 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008006502 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008006503 Nucleoside recognition; Region: Gate; pfam07670 469008006504 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008006505 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 469008006506 active site 469008006507 tetramer interface [polypeptide binding]; other site 469008006508 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 469008006509 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 469008006510 ligand binding site [chemical binding]; other site 469008006511 flexible hinge region; other site 469008006512 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 469008006513 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008006514 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008006515 Nucleoside recognition; Region: Gate; pfam07670 469008006516 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008006517 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 469008006518 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 469008006519 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008006520 substrate binding site [chemical binding]; other site 469008006521 ATP binding site [chemical binding]; other site 469008006522 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 469008006523 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 469008006524 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 469008006525 active site 469008006526 P-loop; other site 469008006527 phosphorylation site [posttranslational modification] 469008006528 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 469008006529 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 469008006530 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 469008006531 putative substrate binding site [chemical binding]; other site 469008006532 putative ATP binding site [chemical binding]; other site 469008006533 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 469008006534 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 469008006535 active site 469008006536 phosphorylation site [posttranslational modification] 469008006537 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 469008006538 dimerization domain swap beta strand [polypeptide binding]; other site 469008006539 regulatory protein interface [polypeptide binding]; other site 469008006540 active site 469008006541 regulatory phosphorylation site [posttranslational modification]; other site 469008006542 sugar efflux transporter B; Provisional; Region: PRK15011 469008006543 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006544 putative substrate translocation pore; other site 469008006545 Flagellin N-methylase; Region: FliB; pfam03692 469008006546 elongation factor P; Provisional; Region: PRK04542 469008006547 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469008006548 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 469008006549 RNA binding site [nucleotide binding]; other site 469008006550 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 469008006551 RNA binding site [nucleotide binding]; other site 469008006552 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 469008006553 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008006554 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008006555 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 469008006556 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 469008006557 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 469008006558 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469008006559 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 469008006560 active site 469008006561 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 469008006562 NlpC/P60 family; Region: NLPC_P60; pfam00877 469008006563 phage resistance protein; Provisional; Region: PRK10551 469008006564 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008006565 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 469008006566 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 469008006567 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 469008006568 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 469008006569 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 469008006570 dimer interface [polypeptide binding]; other site 469008006571 conserved gate region; other site 469008006572 putative PBP binding loops; other site 469008006573 ABC-ATPase subunit interface; other site 469008006574 microcin C ABC transporter permease; Provisional; Region: PRK15021 469008006575 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 469008006576 dimer interface [polypeptide binding]; other site 469008006577 conserved gate region; other site 469008006578 ABC-ATPase subunit interface; other site 469008006579 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 469008006580 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008006581 Walker A/P-loop; other site 469008006582 ATP binding site [chemical binding]; other site 469008006583 Q-loop/lid; other site 469008006584 ABC transporter signature motif; other site 469008006585 Walker B; other site 469008006586 D-loop; other site 469008006587 H-loop/switch region; other site 469008006588 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008006589 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008006590 Walker A/P-loop; other site 469008006591 ATP binding site [chemical binding]; other site 469008006592 Q-loop/lid; other site 469008006593 ABC transporter signature motif; other site 469008006594 Walker B; other site 469008006595 D-loop; other site 469008006596 H-loop/switch region; other site 469008006597 hypothetical protein; Provisional; Region: PRK11835 469008006598 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006599 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 469008006600 putative substrate translocation pore; other site 469008006601 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 469008006602 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 469008006603 RNA binding surface [nucleotide binding]; other site 469008006604 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 469008006605 active site 469008006606 uracil binding [chemical binding]; other site 469008006607 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 469008006608 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 469008006609 ATP binding site [chemical binding]; other site 469008006610 putative Mg++ binding site [ion binding]; other site 469008006611 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 469008006612 nucleotide binding region [chemical binding]; other site 469008006613 ATP-binding site [chemical binding]; other site 469008006614 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 469008006615 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 469008006616 5S rRNA interface [nucleotide binding]; other site 469008006617 CTC domain interface [polypeptide binding]; other site 469008006618 L16 interface [polypeptide binding]; other site 469008006619 Nucleoid-associated protein [General function prediction only]; Region: COG3081 469008006620 nucleoid-associated protein NdpA; Validated; Region: PRK00378 469008006621 hypothetical protein; Provisional; Region: PRK13689 469008006622 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 469008006623 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 469008006624 Sulfatase; Region: Sulfatase; pfam00884 469008006625 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 469008006626 hypothetical protein; Provisional; Region: PRK09945 469008006627 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 469008006628 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008006629 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008006630 transcriptional regulator NarP; Provisional; Region: PRK10403 469008006631 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 469008006632 active site 469008006633 phosphorylation site [posttranslational modification] 469008006634 intermolecular recognition site; other site 469008006635 dimerization interface [polypeptide binding]; other site 469008006636 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 469008006637 DNA binding residues [nucleotide binding] 469008006638 dimerization interface [polypeptide binding]; other site 469008006639 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 469008006640 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 469008006641 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 469008006642 binding surface 469008006643 TPR motif; other site 469008006644 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 469008006645 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 469008006646 catalytic residues [active] 469008006647 central insert; other site 469008006648 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 469008006649 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 469008006650 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 469008006651 heme exporter protein CcmC; Region: ccmC; TIGR01191 469008006652 heme exporter protein CcmB; Region: ccmB; TIGR01190 469008006653 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 469008006654 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 469008006655 Walker A/P-loop; other site 469008006656 ATP binding site [chemical binding]; other site 469008006657 Q-loop/lid; other site 469008006658 ABC transporter signature motif; other site 469008006659 Walker B; other site 469008006660 D-loop; other site 469008006661 H-loop/switch region; other site 469008006662 cytochrome c-type protein NapC; Provisional; Region: PRK10617 469008006663 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 469008006664 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 469008006665 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 469008006666 4Fe-4S binding domain; Region: Fer4_5; pfam12801 469008006667 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008006668 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 469008006669 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 469008006670 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 469008006671 [4Fe-4S] binding site [ion binding]; other site 469008006672 molybdopterin cofactor binding site; other site 469008006673 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 469008006674 molybdopterin cofactor binding site; other site 469008006675 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 469008006676 ferredoxin-type protein; Provisional; Region: PRK10194 469008006677 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 469008006678 secondary substrate binding site; other site 469008006679 primary substrate binding site; other site 469008006680 inhibition loop; other site 469008006681 dimerization interface [polypeptide binding]; other site 469008006682 malate:quinone oxidoreductase; Validated; Region: PRK05257 469008006683 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 469008006684 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 469008006685 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 469008006686 Walker A/P-loop; other site 469008006687 ATP binding site [chemical binding]; other site 469008006688 Q-loop/lid; other site 469008006689 ABC transporter signature motif; other site 469008006690 Walker B; other site 469008006691 D-loop; other site 469008006692 H-loop/switch region; other site 469008006693 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 469008006694 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 469008006695 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 469008006696 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008006697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008006698 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469008006699 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 469008006700 DNA binding site [nucleotide binding] 469008006701 active site 469008006702 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 469008006703 ApbE family; Region: ApbE; pfam02424 469008006705 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006706 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006707 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006708 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006709 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008006710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008006711 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008006712 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008006713 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 469008006714 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 469008006715 dimer interface [polypeptide binding]; other site 469008006716 phosphorylation site [posttranslational modification] 469008006717 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 469008006718 ATP binding site [chemical binding]; other site 469008006719 Mg2+ binding site [ion binding]; other site 469008006720 G-X-G motif; other site 469008006721 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 469008006722 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 469008006723 active site 469008006724 phosphorylation site [posttranslational modification] 469008006725 intermolecular recognition site; other site 469008006726 dimerization interface [polypeptide binding]; other site 469008006727 sensory histidine kinase AtoS; Provisional; Region: PRK11360 469008006728 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 469008006729 putative active site [active] 469008006730 heme pocket [chemical binding]; other site 469008006731 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 469008006732 dimer interface [polypeptide binding]; other site 469008006733 phosphorylation site [posttranslational modification] 469008006734 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 469008006735 ATP binding site [chemical binding]; other site 469008006736 Mg2+ binding site [ion binding]; other site 469008006737 G-X-G motif; other site 469008006738 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 469008006739 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 469008006740 active site 469008006741 phosphorylation site [posttranslational modification] 469008006742 intermolecular recognition site; other site 469008006743 dimerization interface [polypeptide binding]; other site 469008006744 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 469008006745 Walker A motif; other site 469008006746 ATP binding site [chemical binding]; other site 469008006747 Walker B motif; other site 469008006748 arginine finger; other site 469008006749 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008006750 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 469008006751 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 469008006752 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 469008006753 putative acyltransferase; Provisional; Region: PRK05790 469008006754 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 469008006755 dimer interface [polypeptide binding]; other site 469008006756 active site 469008006757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 469008006758 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 469008006759 Predicted secreted protein [Function unknown]; Region: COG5445 469008006760 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 469008006761 Predicted secreted protein [Function unknown]; Region: COG5445 469008006762 Stage II sporulation protein; Region: SpoIID; pfam08486 469008006763 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 469008006764 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469008006765 MG2 domain; Region: A2M_N; pfam01835 469008006766 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 469008006767 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469008006768 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 469008006769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 469008006770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 469008006771 DNA gyrase subunit A; Validated; Region: PRK05560 469008006772 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 469008006773 CAP-like domain; other site 469008006774 active site 469008006775 primary dimer interface [polypeptide binding]; other site 469008006776 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006777 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006778 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006779 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006780 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006781 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008006782 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 469008006783 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 469008006784 S-adenosylmethionine binding site [chemical binding]; other site 469008006785 adhesin; Provisional; Region: PRK09752 469008006786 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 469008006787 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008006788 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 469008006789 ATP cone domain; Region: ATP-cone; pfam03477 469008006790 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469008006791 active site 469008006792 dimer interface [polypeptide binding]; other site 469008006793 catalytic residues [active] 469008006794 effector binding site; other site 469008006795 R2 peptide binding site; other site 469008006796 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469008006797 dimer interface [polypeptide binding]; other site 469008006798 putative radical transfer pathway; other site 469008006799 diiron center [ion binding]; other site 469008006800 tyrosyl radical; other site 469008006801 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008006802 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 469008006803 catalytic loop [active] 469008006804 iron binding site [ion binding]; other site 469008006805 hypothetical protein; Provisional; Region: PRK09902 469008006806 hypothetical protein; Provisional; Region: PRK09729 469008006807 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 469008006808 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 469008006809 active site 469008006810 catalytic site [active] 469008006811 metal binding site [ion binding]; metal-binding site 469008006812 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 469008006813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006814 putative substrate translocation pore; other site 469008006815 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 469008006816 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008006817 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008006818 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 469008006819 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 469008006820 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 469008006821 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 469008006822 Cysteine-rich domain; Region: CCG; pfam02754 469008006823 Cysteine-rich domain; Region: CCG; pfam02754 469008006824 hypothetical protein; Provisional; Region: PRK09956 469008006825 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008006826 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional; Region: PRK10128 469008006827 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 469008006828 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008006829 putative substrate translocation pore; other site 469008006830 L-rhamnonate dehydratase; Provisional; Region: PRK15440 469008006831 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 469008006832 putative active site pocket [active] 469008006833 putative metal binding site [ion binding]; other site 469008006834 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008006835 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008006836 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008006837 hypothetical protein; Provisional; Region: PRK03673 469008006838 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 469008006839 putative MPT binding site; other site 469008006840 Competence-damaged protein; Region: CinA; cl00666 469008006841 YfaZ precursor; Region: YfaZ; pfam07437 469008006842 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 469008006843 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 469008006844 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 469008006845 catalytic core [active] 469008006846 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008006847 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 469008006848 inhibitor-cofactor binding pocket; inhibition site 469008006849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006850 catalytic residue [active] 469008006851 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 469008006852 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 469008006853 Ligand binding site; other site 469008006854 Putative Catalytic site; other site 469008006855 DXD motif; other site 469008006856 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 469008006857 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 469008006858 substrate binding site [chemical binding]; other site 469008006859 cosubstrate binding site; other site 469008006860 catalytic site [active] 469008006861 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 469008006862 active site 469008006863 hexamer interface [polypeptide binding]; other site 469008006864 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 469008006865 NAD binding site [chemical binding]; other site 469008006866 substrate binding site [chemical binding]; other site 469008006867 active site 469008006868 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 469008006869 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 469008006870 putative active site [active] 469008006871 putative catalytic site [active] 469008006872 putative Zn binding site [ion binding]; other site 469008006873 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 469008006874 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 469008006875 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 469008006876 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 469008006877 signal transduction protein PmrD; Provisional; Region: PRK15450 469008006878 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 469008006879 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 469008006880 acyl-activating enzyme (AAE) consensus motif; other site 469008006881 putative AMP binding site [chemical binding]; other site 469008006882 putative active site [active] 469008006883 putative CoA binding site [chemical binding]; other site 469008006884 O-succinylbenzoate synthase; Provisional; Region: PRK05105 469008006885 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 469008006886 active site 469008006887 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 469008006888 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 469008006889 substrate binding site [chemical binding]; other site 469008006890 oxyanion hole (OAH) forming residues; other site 469008006891 trimer interface [polypeptide binding]; other site 469008006892 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 469008006893 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 469008006894 nucleophilic elbow; other site 469008006895 catalytic triad; other site 469008006896 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 469008006897 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 469008006898 dimer interface [polypeptide binding]; other site 469008006899 tetramer interface [polypeptide binding]; other site 469008006900 PYR/PP interface [polypeptide binding]; other site 469008006901 TPP binding site [chemical binding]; other site 469008006902 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 469008006903 TPP-binding site; other site 469008006904 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 469008006905 isochorismate synthases; Region: isochor_syn; TIGR00543 469008006906 hypothetical protein; Provisional; Region: PRK10404 469008006907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008006908 Coenzyme A binding pocket [chemical binding]; other site 469008006909 ribonuclease BN; Region: true_RNase_BN; TIGR02649 469008006910 deubiquitinase; Provisional; Region: PRK11836 469008006914 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 469008006915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008006916 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008006917 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008006918 putative transposase OrfB; Reviewed; Region: PHA02517 469008006919 HTH-like domain; Region: HTH_21; pfam13276 469008006920 Integrase core domain; Region: rve; pfam00665 469008006921 Integrase core domain; Region: rve_2; pfam13333 469008006922 putative transposase OrfB; Reviewed; Region: PHA02517 469008006923 HTH-like domain; Region: HTH_21; pfam13276 469008006924 Integrase core domain; Region: rve; pfam00665 469008006925 Integrase core domain; Region: rve_2; pfam13333 469008006926 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 469008006927 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006928 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 469008006929 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006930 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 469008006931 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 469008006932 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008006933 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 469008006934 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 469008006935 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 469008006936 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006937 4Fe-4S binding domain; Region: Fer4; pfam00037 469008006938 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 469008006939 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 469008006940 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 469008006941 catalytic loop [active] 469008006942 iron binding site [ion binding]; other site 469008006943 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 469008006944 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 469008006945 [4Fe-4S] binding site [ion binding]; other site 469008006946 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 469008006947 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 469008006948 SLBB domain; Region: SLBB; pfam10531 469008006949 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 469008006950 NADH dehydrogenase subunit E; Validated; Region: PRK07539 469008006951 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 469008006952 putative dimer interface [polypeptide binding]; other site 469008006953 [2Fe-2S] cluster binding site [ion binding]; other site 469008006954 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 469008006955 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 469008006956 NADH dehydrogenase subunit D; Validated; Region: PRK06075 469008006957 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 469008006958 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 469008006959 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 469008006960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008006961 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 469008006962 putative dimerization interface [polypeptide binding]; other site 469008006963 aminotransferase AlaT; Validated; Region: PRK09265 469008006964 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 469008006965 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008006966 homodimer interface [polypeptide binding]; other site 469008006967 catalytic residue [active] 469008006968 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008006969 Zn2+ binding site [ion binding]; other site 469008006970 Mg2+ binding site [ion binding]; other site 469008006971 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 469008006972 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008006973 TrkA-C domain; Region: TrkA_C; pfam02080 469008006974 TrkA-C domain; Region: TrkA_C; pfam02080 469008006975 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 469008006976 putative phosphatase; Provisional; Region: PRK11587 469008006977 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 469008006978 motif II; other site 469008006979 hypothetical protein; Validated; Region: PRK05445 469008006980 hypothetical protein; Provisional; Region: PRK01816 469008006981 propionate/acetate kinase; Provisional; Region: PRK12379 469008006982 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 469008006983 phosphate acetyltransferase; Reviewed; Region: PRK05632 469008006984 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 469008006985 DRTGG domain; Region: DRTGG; pfam07085 469008006986 phosphate acetyltransferase; Region: pta; TIGR00651 469008006987 hypothetical protein; Provisional; Region: PRK11588 469008006988 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008006989 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 469008006990 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 469008006991 nudix motif; other site 469008006992 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 469008006993 active site 469008006994 metal binding site [ion binding]; metal-binding site 469008006995 homotetramer interface [polypeptide binding]; other site 469008006996 glutathione S-transferase; Provisional; Region: PRK15113 469008006997 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 469008006998 C-terminal domain interface [polypeptide binding]; other site 469008006999 GSH binding site (G-site) [chemical binding]; other site 469008007000 dimer interface [polypeptide binding]; other site 469008007001 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 469008007002 N-terminal domain interface [polypeptide binding]; other site 469008007003 putative dimer interface [polypeptide binding]; other site 469008007004 putative substrate binding pocket (H-site) [chemical binding]; other site 469008007005 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 469008007006 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 469008007007 C-terminal domain interface [polypeptide binding]; other site 469008007008 GSH binding site (G-site) [chemical binding]; other site 469008007009 dimer interface [polypeptide binding]; other site 469008007010 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 469008007011 N-terminal domain interface [polypeptide binding]; other site 469008007012 putative dimer interface [polypeptide binding]; other site 469008007013 active site 469008007014 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 469008007015 homooctamer interface [polypeptide binding]; other site 469008007016 active site 469008007017 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 469008007018 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 469008007019 putative NAD(P) binding site [chemical binding]; other site 469008007020 putative active site [active] 469008007021 putative transposase; Provisional; Region: PRK09857 469008007022 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008007023 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 469008007024 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008007025 Walker A/P-loop; other site 469008007026 ATP binding site [chemical binding]; other site 469008007027 Q-loop/lid; other site 469008007028 ABC transporter signature motif; other site 469008007029 Walker B; other site 469008007030 D-loop; other site 469008007031 H-loop/switch region; other site 469008007032 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 469008007033 dimer interface [polypeptide binding]; other site 469008007034 conserved gate region; other site 469008007035 putative PBP binding loops; other site 469008007036 ABC-ATPase subunit interface; other site 469008007037 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008007038 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 469008007039 dimer interface [polypeptide binding]; other site 469008007040 conserved gate region; other site 469008007041 putative PBP binding loops; other site 469008007042 ABC-ATPase subunit interface; other site 469008007043 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 469008007044 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 469008007045 substrate binding pocket [chemical binding]; other site 469008007046 membrane-bound complex binding site; other site 469008007047 hinge residues; other site 469008007048 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 469008007049 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 469008007050 substrate binding pocket [chemical binding]; other site 469008007051 membrane-bound complex binding site; other site 469008007052 hinge residues; other site 469008007053 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 469008007054 Flavoprotein; Region: Flavoprotein; pfam02441 469008007055 amidophosphoribosyltransferase; Provisional; Region: PRK09246 469008007056 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 469008007057 active site 469008007058 tetramer interface [polypeptide binding]; other site 469008007059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008007060 active site 469008007061 colicin V production protein; Provisional; Region: PRK10845 469008007062 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 469008007063 cell division protein DedD; Provisional; Region: PRK11633 469008007064 Sporulation related domain; Region: SPOR; pfam05036 469008007065 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 469008007066 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008007067 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008007068 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 469008007069 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 469008007070 hypothetical protein; Provisional; Region: PRK10847 469008007071 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008007072 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 469008007073 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 469008007074 dimerization interface 3.5A [polypeptide binding]; other site 469008007075 active site 469008007076 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 469008007077 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008007078 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 469008007079 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 469008007080 ligand binding site [chemical binding]; other site 469008007081 NAD binding site [chemical binding]; other site 469008007082 catalytic site [active] 469008007083 homodimer interface [polypeptide binding]; other site 469008007084 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 469008007085 putative transporter; Provisional; Region: PRK12382 469008007086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007087 putative substrate translocation pore; other site 469008007088 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 469008007089 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 469008007090 dimer interface [polypeptide binding]; other site 469008007091 active site 469008007092 Uncharacterized conserved protein [Function unknown]; Region: COG4121 469008007093 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 469008007094 YfcL protein; Region: YfcL; pfam08891 469008007095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 469008007096 hypothetical protein; Provisional; Region: PRK10621 469008007097 Predicted permeases [General function prediction only]; Region: COG0730 469008007098 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 469008007099 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 469008007100 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 469008007101 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 469008007102 Tetramer interface [polypeptide binding]; other site 469008007103 active site 469008007104 FMN-binding site [chemical binding]; other site 469008007105 HemK family putative methylases; Region: hemK_fam; TIGR00536 469008007106 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 469008007107 S-adenosylmethionine binding site [chemical binding]; other site 469008007108 hypothetical protein; Provisional; Region: PRK04946 469008007109 Smr domain; Region: Smr; pfam01713 469008007110 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 469008007111 Fimbrial protein; Region: Fimbrial; cl01416 469008007112 Fimbrial protein; Region: Fimbrial; cl01416 469008007113 Fimbrial protein; Region: Fimbrial; cl01416 469008007114 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008007115 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008007116 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 469008007117 PapC N-terminal domain; Region: PapC_N; pfam13954 469008007118 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008007119 PapC C-terminal domain; Region: PapC_C; pfam13953 469008007120 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008007121 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 469008007122 catalytic core [active] 469008007123 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 469008007124 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 469008007125 substrate binding site [chemical binding]; other site 469008007126 oxyanion hole (OAH) forming residues; other site 469008007127 trimer interface [polypeptide binding]; other site 469008007128 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469008007129 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008007130 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 469008007131 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 469008007132 dimer interface [polypeptide binding]; other site 469008007133 active site 469008007134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 469008007135 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 469008007136 predicted protein, disrupted by IS element, N-ter fragment 469008007137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007138 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007139 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007140 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007141 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007143 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007144 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007145 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 469008007146 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 469008007147 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 469008007148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007149 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 469008007150 dimerization interface [polypeptide binding]; other site 469008007151 substrate binding pocket [chemical binding]; other site 469008007152 permease DsdX; Provisional; Region: PRK09921 469008007153 gluconate transporter; Region: gntP; TIGR00791 469008007154 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 469008007155 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 469008007156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008007157 catalytic residue [active] 469008007158 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 469008007159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007160 putative substrate translocation pore; other site 469008007161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007162 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 469008007163 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008007164 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008007165 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 469008007166 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 469008007167 active site 469008007168 phosphorylation site [posttranslational modification] 469008007169 intermolecular recognition site; other site 469008007170 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 469008007171 DNA binding residues [nucleotide binding] 469008007172 dimerization interface [polypeptide binding]; other site 469008007173 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 469008007174 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 469008007175 substrate binding pocket [chemical binding]; other site 469008007176 membrane-bound complex binding site; other site 469008007177 hinge residues; other site 469008007178 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 469008007179 substrate binding pocket [chemical binding]; other site 469008007180 membrane-bound complex binding site; other site 469008007181 hinge residues; other site 469008007182 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 469008007183 dimer interface [polypeptide binding]; other site 469008007184 phosphorylation site [posttranslational modification] 469008007185 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 469008007186 ATP binding site [chemical binding]; other site 469008007187 Mg2+ binding site [ion binding]; other site 469008007188 G-X-G motif; other site 469008007189 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 469008007190 active site 469008007191 phosphorylation site [posttranslational modification] 469008007192 intermolecular recognition site; other site 469008007193 dimerization interface [polypeptide binding]; other site 469008007194 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 469008007195 putative binding surface; other site 469008007196 active site 469008007197 putative CoA-transferase; Provisional; Region: PRK11430 469008007198 CoA-transferase family III; Region: CoA_transf_3; pfam02515 469008007199 putative transporter YfdV; Provisional; Region: PRK09903 469008007200 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 469008007201 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008007202 PYR/PP interface [polypeptide binding]; other site 469008007203 dimer interface [polypeptide binding]; other site 469008007204 TPP binding site [chemical binding]; other site 469008007205 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008007206 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 469008007207 TPP-binding site; other site 469008007208 dimer interface [polypeptide binding]; other site 469008007209 formyl-coenzyme A transferase; Provisional; Region: PRK05398 469008007210 CoA-transferase family III; Region: CoA_transf_3; pfam02515 469008007211 hypothetical protein; Provisional; Region: PRK10316 469008007212 YfdX protein; Region: YfdX; pfam10938 469008007213 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 469008007214 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469008007215 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469008007216 putative acyl-acceptor binding pocket; other site 469008007217 aminotransferase; Validated; Region: PRK08175 469008007218 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 469008007219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007220 homodimer interface [polypeptide binding]; other site 469008007221 catalytic residue [active] 469008007222 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469008007223 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469008007224 GAF domain; Region: GAF; pfam01590 469008007225 Histidine kinase; Region: His_kinase; pfam06580 469008007226 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 469008007227 ATP binding site [chemical binding]; other site 469008007228 Mg2+ binding site [ion binding]; other site 469008007229 G-X-G motif; other site 469008007230 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 469008007231 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 469008007232 active site 469008007233 phosphorylation site [posttranslational modification] 469008007234 intermolecular recognition site; other site 469008007235 dimerization interface [polypeptide binding]; other site 469008007236 LytTr DNA-binding domain; Region: LytTR; pfam04397 469008007237 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008007238 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007239 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 469008007240 dimerization domain swap beta strand [polypeptide binding]; other site 469008007241 regulatory protein interface [polypeptide binding]; other site 469008007242 active site 469008007243 regulatory phosphorylation site [posttranslational modification]; other site 469008007244 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008007245 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469008007246 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008007247 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008007248 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 469008007249 active site 469008007250 phosphorylation site [posttranslational modification] 469008007251 exoaminopeptidase; Provisional; Region: PRK09961 469008007252 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 469008007253 oligomer interface [polypeptide binding]; other site 469008007254 active site 469008007255 metal binding site [ion binding]; metal-binding site 469008007256 aminopeptidase; Provisional; Region: PRK09795 469008007257 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469008007258 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 469008007259 active site 469008007260 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008007261 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 469008007262 active site 469008007263 P-loop; other site 469008007264 phosphorylation site [posttranslational modification] 469008007265 glucokinase, proteobacterial type; Region: glk; TIGR00749 469008007266 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007267 nucleotide binding site [chemical binding]; other site 469008007268 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469008007269 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 469008007270 Cl- selectivity filter; other site 469008007271 Cl- binding residues [ion binding]; other site 469008007272 pore gating glutamate residue; other site 469008007273 dimer interface [polypeptide binding]; other site 469008007274 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 469008007275 manganese transport protein MntH; Reviewed; Region: PRK00701 469008007276 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 469008007277 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 469008007278 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 469008007279 Nucleoside recognition; Region: Gate; pfam07670 469008007280 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 469008007281 MASE1; Region: MASE1; pfam05231 469008007282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008007283 diguanylate cyclase; Region: GGDEF; smart00267 469008007284 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 469008007285 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 469008007286 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 469008007287 salt bridge; other site 469008007288 non-specific DNA binding site [nucleotide binding]; other site 469008007289 sequence-specific DNA binding site [nucleotide binding]; other site 469008007290 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 469008007291 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469008007292 active site 469008007293 HIGH motif; other site 469008007294 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469008007295 active site 469008007296 KMSKS motif; other site 469008007297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008007298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007299 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 469008007300 putative dimerization interface [polypeptide binding]; other site 469008007301 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 469008007302 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 469008007303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 469008007304 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 469008007305 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 469008007306 nucleotide binding pocket [chemical binding]; other site 469008007307 K-X-D-G motif; other site 469008007308 catalytic site [active] 469008007309 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469008007310 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 469008007311 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 469008007312 Dimer interface [polypeptide binding]; other site 469008007313 BRCT sequence motif; other site 469008007314 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 469008007315 cell division protein ZipA; Provisional; Region: PRK03427 469008007316 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 469008007317 FtsZ protein binding site [polypeptide binding]; other site 469008007318 putative sulfate transport protein CysZ; Validated; Region: PRK04949 469008007319 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469008007320 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 469008007321 dimer interface [polypeptide binding]; other site 469008007322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007323 catalytic residue [active] 469008007324 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 469008007325 dimerization domain swap beta strand [polypeptide binding]; other site 469008007326 regulatory protein interface [polypeptide binding]; other site 469008007327 active site 469008007328 regulatory phosphorylation site [posttranslational modification]; other site 469008007329 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 469008007330 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008007331 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008007332 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008007333 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 469008007334 HPr interaction site; other site 469008007335 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008007336 active site 469008007337 phosphorylation site [posttranslational modification] 469008007338 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 469008007339 dimer interface [polypeptide binding]; other site 469008007340 pyridoxamine kinase; Validated; Region: PRK05756 469008007341 pyridoxal binding site [chemical binding]; other site 469008007342 ATP binding site [chemical binding]; other site 469008007343 hypothetical protein; Provisional; Region: PRK10318 469008007344 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469008007345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 469008007346 cysteine synthase B; Region: cysM; TIGR01138 469008007347 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 469008007348 dimer interface [polypeptide binding]; other site 469008007349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008007350 catalytic residue [active] 469008007351 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 469008007352 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 469008007353 Walker A/P-loop; other site 469008007354 ATP binding site [chemical binding]; other site 469008007355 Q-loop/lid; other site 469008007356 ABC transporter signature motif; other site 469008007357 Walker B; other site 469008007358 D-loop; other site 469008007359 H-loop/switch region; other site 469008007360 TOBE-like domain; Region: TOBE_3; pfam12857 469008007361 sulfate transport protein; Provisional; Region: cysT; CHL00187 469008007362 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 469008007363 dimer interface [polypeptide binding]; other site 469008007364 conserved gate region; other site 469008007365 putative PBP binding loops; other site 469008007366 ABC-ATPase subunit interface; other site 469008007367 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 469008007368 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 469008007369 dimer interface [polypeptide binding]; other site 469008007370 conserved gate region; other site 469008007371 putative PBP binding loops; other site 469008007372 ABC-ATPase subunit interface; other site 469008007373 thiosulfate transporter subunit; Provisional; Region: PRK10852 469008007374 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469008007375 short chain dehydrogenase; Provisional; Region: PRK08226 469008007376 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 469008007377 NAD binding site [chemical binding]; other site 469008007378 homotetramer interface [polypeptide binding]; other site 469008007379 homodimer interface [polypeptide binding]; other site 469008007380 active site 469008007381 transcriptional regulator MurR; Provisional; Region: PRK15482 469008007382 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008007383 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 469008007384 putative active site [active] 469008007385 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 469008007386 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 469008007387 putative active site [active] 469008007388 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 469008007389 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 469008007390 active site turn [active] 469008007391 phosphorylation site [posttranslational modification] 469008007392 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008007394 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 469008007395 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 469008007396 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 469008007397 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 469008007398 putative acetyltransferase; Provisional; Region: PRK03624 469008007399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008007400 Coenzyme A binding pocket [chemical binding]; other site 469008007401 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 469008007402 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 469008007403 active site 469008007404 metal binding site [ion binding]; metal-binding site 469008007405 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 469008007406 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 469008007407 transcriptional regulator EutR; Provisional; Region: PRK10130 469008007408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008007410 carboxysome structural protein EutK; Provisional; Region: PRK15466 469008007411 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469008007412 Hexamer interface [polypeptide binding]; other site 469008007413 Hexagonal pore residue; other site 469008007414 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 469008007415 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 469008007416 putative hexamer interface [polypeptide binding]; other site 469008007417 putative hexagonal pore; other site 469008007418 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 469008007419 putative hexamer interface [polypeptide binding]; other site 469008007420 putative hexagonal pore; other site 469008007421 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 469008007422 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 469008007423 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 469008007424 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 469008007425 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 469008007426 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 469008007427 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 469008007428 active site 469008007429 metal binding site [ion binding]; metal-binding site 469008007430 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 469008007431 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007432 nucleotide binding site [chemical binding]; other site 469008007433 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 469008007434 putative catalytic cysteine [active] 469008007435 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 469008007436 Hexamer/Pentamer interface [polypeptide binding]; other site 469008007437 central pore; other site 469008007438 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469008007439 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 469008007440 Hexamer interface [polypeptide binding]; other site 469008007441 Putative hexagonal pore residue; other site 469008007442 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 469008007443 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 469008007444 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 469008007445 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 469008007446 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469008007447 G1 box; other site 469008007448 GTP/Mg2+ binding site [chemical binding]; other site 469008007449 G2 box; other site 469008007450 Switch I region; other site 469008007451 G3 box; other site 469008007452 Switch II region; other site 469008007453 G4 box; other site 469008007454 G5 box; other site 469008007455 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 469008007456 putative hexamer interface [polypeptide binding]; other site 469008007457 putative hexagonal pore; other site 469008007458 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 469008007459 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469008007460 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 469008007461 putative NAD(P) binding site [chemical binding]; other site 469008007462 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 469008007463 transaldolase-like protein; Provisional; Region: PTZ00411 469008007464 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 469008007465 active site 469008007466 dimer interface [polypeptide binding]; other site 469008007467 catalytic residue [active] 469008007468 transketolase; Reviewed; Region: PRK12753 469008007469 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 469008007470 TPP-binding site [chemical binding]; other site 469008007471 dimer interface [polypeptide binding]; other site 469008007472 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 469008007473 PYR/PP interface [polypeptide binding]; other site 469008007474 dimer interface [polypeptide binding]; other site 469008007475 TPP binding site [chemical binding]; other site 469008007476 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008007477 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 469008007478 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 469008007479 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 469008007480 dimer interface [polypeptide binding]; other site 469008007481 ADP-ribose binding site [chemical binding]; other site 469008007482 active site 469008007483 nudix motif; other site 469008007484 metal binding site [ion binding]; metal-binding site 469008007485 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 469008007486 4Fe-4S binding domain; Region: Fer4; pfam00037 469008007487 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008007488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008007489 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 469008007490 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 469008007491 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 469008007492 dimerization interface [polypeptide binding]; other site 469008007493 Histidine kinase; Region: HisKA_3; pfam07730 469008007494 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 469008007495 ATP binding site [chemical binding]; other site 469008007496 Mg2+ binding site [ion binding]; other site 469008007497 G-X-G motif; other site 469008007498 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 469008007499 Protein export membrane protein; Region: SecD_SecF; cl14618 469008007500 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 469008007501 ArsC family; Region: ArsC; pfam03960 469008007502 putative catalytic residues [active] 469008007503 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 469008007504 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 469008007505 metal binding site [ion binding]; metal-binding site 469008007506 dimer interface [polypeptide binding]; other site 469008007507 hypothetical protein; Provisional; Region: PRK13664 469008007508 putative hydrolase; Provisional; Region: PRK11460 469008007509 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 469008007510 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 469008007511 Helicase; Region: Helicase_RecD; pfam05127 469008007512 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 469008007513 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 469008007514 Predicted metalloprotease [General function prediction only]; Region: COG2321 469008007515 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 469008007516 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 469008007517 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 469008007518 ATP binding site [chemical binding]; other site 469008007519 active site 469008007520 substrate binding site [chemical binding]; other site 469008007521 lipoprotein; Provisional; Region: PRK11679 469008007522 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 469008007523 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 469008007524 dihydrodipicolinate synthase; Region: dapA; TIGR00674 469008007525 dimer interface [polypeptide binding]; other site 469008007526 active site 469008007527 catalytic residue [active] 469008007528 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 469008007529 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 469008007530 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 469008007531 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 469008007532 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 469008007533 catalytic triad [active] 469008007534 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008007535 4Fe-4S binding domain; Region: Fer4; pfam00037 469008007536 hydrogenase 4 subunit B; Validated; Region: PRK06521 469008007537 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008007540 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 469008007541 hydrogenase 4 subunit F; Validated; Region: PRK06458 469008007542 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008007543 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 469008007544 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 469008007545 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 469008007546 hydrogenase 4 subunit H; Validated; Region: PRK08222 469008007547 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 469008007548 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 469008007549 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 469008007550 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 469008007551 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008007552 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 469008007553 Walker A motif; other site 469008007554 ATP binding site [chemical binding]; other site 469008007555 Walker B motif; other site 469008007556 arginine finger; other site 469008007557 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008007558 putative formate transporter; Provisional; Region: focB; PRK09713 469008007559 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 469008007560 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008007561 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 469008007562 Peptidase family M48; Region: Peptidase_M48; cl12018 469008007563 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 469008007564 ArsC family; Region: ArsC; pfam03960 469008007565 catalytic residues [active] 469008007566 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 469008007567 DNA replication initiation factor; Provisional; Region: PRK08084 469008007568 uracil transporter; Provisional; Region: PRK10720 469008007569 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008007570 active site 469008007571 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 469008007572 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 469008007573 dimerization interface [polypeptide binding]; other site 469008007574 putative ATP binding site [chemical binding]; other site 469008007575 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 469008007576 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 469008007577 active site 469008007578 substrate binding site [chemical binding]; other site 469008007579 cosubstrate binding site; other site 469008007580 catalytic site [active] 469008007581 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 469008007582 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 469008007583 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 469008007584 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 469008007585 domain interface [polypeptide binding]; other site 469008007586 active site 469008007587 catalytic site [active] 469008007588 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 469008007589 putative active site [active] 469008007590 catalytic site [active] 469008007591 exopolyphosphatase; Provisional; Region: PRK10854 469008007592 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469008007593 MASE1; Region: MASE1; pfam05231 469008007594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 469008007595 diguanylate cyclase; Region: GGDEF; smart00267 469008007596 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 469008007597 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 469008007598 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 469008007599 GMP synthase; Reviewed; Region: guaA; PRK00074 469008007600 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 469008007601 AMP/PPi binding site [chemical binding]; other site 469008007602 candidate oxyanion hole; other site 469008007603 catalytic triad [active] 469008007604 potential glutamine specificity residues [chemical binding]; other site 469008007605 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 469008007606 ATP Binding subdomain [chemical binding]; other site 469008007607 Ligand Binding sites [chemical binding]; other site 469008007608 Dimerization subdomain; other site 469008007609 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 469008007610 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 469008007611 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 469008007612 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 469008007613 active site 469008007614 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 469008007615 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 469008007616 generic binding surface II; other site 469008007617 generic binding surface I; other site 469008007618 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 469008007619 GTP-binding protein Der; Reviewed; Region: PRK00093 469008007620 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 469008007621 G1 box; other site 469008007622 GTP/Mg2+ binding site [chemical binding]; other site 469008007623 Switch I region; other site 469008007624 G2 box; other site 469008007625 Switch II region; other site 469008007626 G3 box; other site 469008007627 G4 box; other site 469008007628 G5 box; other site 469008007629 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 469008007630 G1 box; other site 469008007631 GTP/Mg2+ binding site [chemical binding]; other site 469008007632 Switch I region; other site 469008007633 G2 box; other site 469008007634 G3 box; other site 469008007635 Switch II region; other site 469008007636 G4 box; other site 469008007637 G5 box; other site 469008007638 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 469008007639 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 469008007640 Trp docking motif [polypeptide binding]; other site 469008007641 active site 469008007642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 469008007643 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 469008007644 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 469008007645 dimer interface [polypeptide binding]; other site 469008007646 motif 1; other site 469008007647 active site 469008007648 motif 2; other site 469008007649 motif 3; other site 469008007650 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 469008007651 anticodon binding site; other site 469008007652 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 469008007653 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469008007654 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469008007655 cytoskeletal protein RodZ; Provisional; Region: PRK10856 469008007656 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 469008007657 non-specific DNA binding site [nucleotide binding]; other site 469008007658 salt bridge; other site 469008007659 sequence-specific DNA binding site [nucleotide binding]; other site 469008007660 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 469008007661 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 469008007662 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 469008007663 FeS/SAM binding site; other site 469008007664 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 469008007665 active site 469008007666 multimer interface [polypeptide binding]; other site 469008007667 penicillin-binding protein 1C; Provisional; Region: PRK11240 469008007668 Transglycosylase; Region: Transgly; pfam00912 469008007669 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008007670 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 469008007671 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469008007672 MG2 domain; Region: A2M_N; pfam01835 469008007673 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469008007674 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 469008007675 surface patch; other site 469008007676 thioester region; other site 469008007677 specificity defining residues; other site 469008007678 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 469008007679 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 469008007680 active site residue [active] 469008007681 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 469008007682 active site residue [active] 469008007683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008007684 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008007685 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008007686 putative transposase OrfB; Reviewed; Region: PHA02517 469008007687 HTH-like domain; Region: HTH_21; pfam13276 469008007688 Integrase core domain; Region: rve; pfam00665 469008007689 Integrase core domain; Region: rve_2; pfam13333 469008007690 putative transposase OrfB; Reviewed; Region: PHA02517 469008007691 HTH-like domain; Region: HTH_21; pfam13276 469008007692 Integrase core domain; Region: rve; pfam00665 469008007693 Integrase core domain; Region: rve_2; pfam13333 469008007694 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 469008007695 aminopeptidase B; Provisional; Region: PRK05015 469008007696 Peptidase; Region: DUF3663; pfam12404 469008007697 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 469008007698 interface (dimer of trimers) [polypeptide binding]; other site 469008007699 Substrate-binding/catalytic site; other site 469008007700 Zn-binding sites [ion binding]; other site 469008007701 hypothetical protein; Provisional; Region: PRK10721 469008007702 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 469008007703 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 469008007704 catalytic loop [active] 469008007705 iron binding site [ion binding]; other site 469008007706 chaperone protein HscA; Provisional; Region: hscA; PRK05183 469008007707 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 469008007708 nucleotide binding site [chemical binding]; other site 469008007709 putative NEF/HSP70 interaction site [polypeptide binding]; other site 469008007710 SBD interface [polypeptide binding]; other site 469008007711 co-chaperone HscB; Provisional; Region: hscB; PRK05014 469008007712 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 469008007713 HSP70 interaction site [polypeptide binding]; other site 469008007714 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 469008007715 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 469008007716 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 469008007717 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 469008007718 trimerization site [polypeptide binding]; other site 469008007719 active site 469008007720 cysteine desulfurase; Provisional; Region: PRK14012 469008007721 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 469008007722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008007723 catalytic residue [active] 469008007724 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 469008007725 Rrf2 family protein; Region: rrf2_super; TIGR00738 469008007726 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 469008007727 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 469008007728 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 469008007729 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 469008007730 active site 469008007731 dimerization interface [polypeptide binding]; other site 469008007732 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 469008007733 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008007734 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 469008007735 PRD domain; Region: PRD; pfam00874 469008007736 PRD domain; Region: PRD; pfam00874 469008007737 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 469008007738 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007739 putative substrate translocation pore; other site 469008007740 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 469008007741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007742 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 469008007743 putative dimerization interface [polypeptide binding]; other site 469008007744 putative substrate binding pocket [chemical binding]; other site 469008007745 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 469008007746 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 469008007747 iron-sulfur cluster [ion binding]; other site 469008007748 [2Fe-2S] cluster binding site [ion binding]; other site 469008007749 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 469008007750 beta subunit interface [polypeptide binding]; other site 469008007751 alpha subunit interface [polypeptide binding]; other site 469008007752 active site 469008007753 substrate binding site [chemical binding]; other site 469008007754 Fe binding site [ion binding]; other site 469008007755 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 469008007756 inter-subunit interface; other site 469008007757 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 469008007758 [2Fe-2S] cluster binding site [ion binding]; other site 469008007759 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 469008007760 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 469008007761 NAD binding site [chemical binding]; other site 469008007762 active site 469008007763 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 469008007764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008007765 Predicted membrane protein [Function unknown]; Region: COG2259 469008007766 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 469008007767 active site 469008007768 catalytic residues [active] 469008007769 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008007770 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 469008007771 putative NAD(P) binding site [chemical binding]; other site 469008007772 catalytic Zn binding site [ion binding]; other site 469008007773 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008007774 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 469008007775 TM-ABC transporter signature motif; other site 469008007776 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008007777 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008007778 Walker A/P-loop; other site 469008007779 ATP binding site [chemical binding]; other site 469008007780 Q-loop/lid; other site 469008007781 ABC transporter signature motif; other site 469008007782 Walker B; other site 469008007783 D-loop; other site 469008007784 H-loop/switch region; other site 469008007785 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008007786 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 469008007787 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 469008007788 ligand binding site [chemical binding]; other site 469008007789 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 469008007790 TPR motif; other site 469008007791 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469008007792 binding surface 469008007793 TPR repeat; Region: TPR_11; pfam13414 469008007794 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 469008007795 TPR motif; other site 469008007796 binding surface 469008007797 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 469008007798 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469008007799 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008007800 nucleotide binding site [chemical binding]; other site 469008007801 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 469008007802 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 469008007803 dimer interface [polypeptide binding]; other site 469008007804 active site 469008007805 glycine-pyridoxal phosphate binding site [chemical binding]; other site 469008007806 folate binding site [chemical binding]; other site 469008007807 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 469008007808 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 469008007809 heme-binding site [chemical binding]; other site 469008007810 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 469008007811 FAD binding pocket [chemical binding]; other site 469008007812 FAD binding motif [chemical binding]; other site 469008007813 phosphate binding motif [ion binding]; other site 469008007814 beta-alpha-beta structure motif; other site 469008007815 NAD binding pocket [chemical binding]; other site 469008007816 Heme binding pocket [chemical binding]; other site 469008007817 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 469008007818 Nitrogen regulatory protein P-II; Region: P-II; smart00938 469008007819 response regulator GlrR; Provisional; Region: PRK15115 469008007820 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 469008007821 active site 469008007822 phosphorylation site [posttranslational modification] 469008007823 intermolecular recognition site; other site 469008007824 dimerization interface [polypeptide binding]; other site 469008007825 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 469008007826 Walker A motif; other site 469008007827 ATP binding site [chemical binding]; other site 469008007828 Walker B motif; other site 469008007829 arginine finger; other site 469008007830 hypothetical protein; Provisional; Region: PRK10722 469008007831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469008007832 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 469008007833 dimer interface [polypeptide binding]; other site 469008007834 phosphorylation site [posttranslational modification] 469008007835 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 469008007836 ATP binding site [chemical binding]; other site 469008007837 Mg2+ binding site [ion binding]; other site 469008007838 G-X-G motif; other site 469008007839 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 469008007840 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 469008007841 dimerization interface [polypeptide binding]; other site 469008007842 ATP binding site [chemical binding]; other site 469008007843 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 469008007844 dimerization interface [polypeptide binding]; other site 469008007845 ATP binding site [chemical binding]; other site 469008007846 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 469008007847 putative active site [active] 469008007848 catalytic triad [active] 469008007849 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 469008007850 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 469008007851 substrate binding pocket [chemical binding]; other site 469008007852 membrane-bound complex binding site; other site 469008007853 hinge residues; other site 469008007854 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 469008007855 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008007856 catalytic residue [active] 469008007857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007858 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007859 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007860 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008007862 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008007863 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008007864 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008007866 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 469008007867 nucleoside/Zn binding site; other site 469008007868 dimer interface [polypeptide binding]; other site 469008007869 catalytic motif [active] 469008007870 hypothetical protein; Provisional; Region: PRK11590 469008007871 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 469008007872 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008007873 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 469008007874 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 469008007875 putative active site [active] 469008007876 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 469008007877 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 469008007878 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 469008007879 active site 469008007880 hydrophilic channel; other site 469008007881 dimerization interface [polypeptide binding]; other site 469008007882 catalytic residues [active] 469008007883 active site lid [active] 469008007884 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 469008007885 Recombination protein O N terminal; Region: RecO_N; pfam11967 469008007886 Recombination protein O C terminal; Region: RecO_C; pfam02565 469008007887 GTPase Era; Reviewed; Region: era; PRK00089 469008007888 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 469008007889 G1 box; other site 469008007890 GTP/Mg2+ binding site [chemical binding]; other site 469008007891 Switch I region; other site 469008007892 G2 box; other site 469008007893 Switch II region; other site 469008007894 G3 box; other site 469008007895 G4 box; other site 469008007896 G5 box; other site 469008007897 KH domain; Region: KH_2; pfam07650 469008007898 ribonuclease III; Reviewed; Region: rnc; PRK00102 469008007899 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 469008007900 dimerization interface [polypeptide binding]; other site 469008007901 active site 469008007902 metal binding site [ion binding]; metal-binding site 469008007903 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 469008007904 dsRNA binding site [nucleotide binding]; other site 469008007905 signal peptidase I; Provisional; Region: PRK10861 469008007906 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 469008007907 Catalytic site [active] 469008007908 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 469008007909 GTP-binding protein LepA; Provisional; Region: PRK05433 469008007910 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 469008007911 G1 box; other site 469008007912 putative GEF interaction site [polypeptide binding]; other site 469008007913 GTP/Mg2+ binding site [chemical binding]; other site 469008007914 Switch I region; other site 469008007915 G2 box; other site 469008007916 G3 box; other site 469008007917 Switch II region; other site 469008007918 G4 box; other site 469008007919 G5 box; other site 469008007920 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 469008007921 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 469008007922 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 469008007923 SoxR reducing system protein RseC; Provisional; Region: PRK10862 469008007924 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 469008007925 anti-sigma E factor; Provisional; Region: rseB; PRK09455 469008007926 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 469008007927 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 469008007928 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 469008007929 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 469008007930 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008007931 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 469008007932 DNA binding residues [nucleotide binding] 469008007933 L-aspartate oxidase; Provisional; Region: PRK09077 469008007934 L-aspartate oxidase; Provisional; Region: PRK06175 469008007935 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008007936 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469008007937 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469008007938 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 469008007939 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 469008007940 ATP binding site [chemical binding]; other site 469008007941 Mg++ binding site [ion binding]; other site 469008007942 motif III; other site 469008007943 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 469008007944 nucleotide binding region [chemical binding]; other site 469008007945 ATP-binding site [chemical binding]; other site 469008007946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008007947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008007948 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 469008007949 dimerization interface [polypeptide binding]; other site 469008007950 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 469008007951 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 469008007952 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 469008007953 ligand binding site [chemical binding]; other site 469008007954 active site 469008007955 UGI interface [polypeptide binding]; other site 469008007956 catalytic site [active] 469008007957 putative methyltransferase; Provisional; Region: PRK10864 469008007958 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 469008007959 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008007960 thioredoxin 2; Provisional; Region: PRK10996 469008007961 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 469008007962 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 469008007963 catalytic residues [active] 469008007964 Uncharacterized conserved protein [Function unknown]; Region: COG3148 469008007965 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 469008007966 CoA binding domain; Region: CoA_binding_2; pfam13380 469008007967 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 469008007968 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 469008007969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469008007970 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469008007971 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 469008007972 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 469008007973 domain interface [polypeptide binding]; other site 469008007974 putative active site [active] 469008007975 catalytic site [active] 469008007976 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 469008007977 domain interface [polypeptide binding]; other site 469008007978 putative active site [active] 469008007979 catalytic site [active] 469008007980 lipoprotein; Provisional; Region: PRK10759 469008007981 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 469008007982 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008007983 putative substrate translocation pore; other site 469008007984 protein disaggregation chaperone; Provisional; Region: PRK10865 469008007985 Clp amino terminal domain; Region: Clp_N; pfam02861 469008007986 Clp amino terminal domain; Region: Clp_N; pfam02861 469008007987 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 469008007988 Walker A motif; other site 469008007989 ATP binding site [chemical binding]; other site 469008007990 Walker B motif; other site 469008007991 arginine finger; other site 469008007992 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 469008007993 Walker A motif; other site 469008007994 ATP binding site [chemical binding]; other site 469008007995 Walker B motif; other site 469008007996 arginine finger; other site 469008007997 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 469008007998 hypothetical protein; Provisional; Region: PRK10723 469008007999 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 469008008000 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 469008008001 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 469008008002 RNA binding surface [nucleotide binding]; other site 469008008003 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469008008004 active site 469008008005 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 469008008006 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 469008008007 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 469008008008 30S subunit binding site; other site 469008008009 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 469008008010 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 469008008011 Prephenate dehydratase; Region: PDT; pfam00800 469008008012 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 469008008013 putative L-Phe binding site [chemical binding]; other site 469008008014 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 469008008015 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 469008008016 prephenate dehydrogenase; Validated; Region: PRK08507 469008008017 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 469008008018 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469008008019 lipoprotein; Provisional; Region: PRK11443 469008008020 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 469008008021 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 469008008022 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 469008008023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008008024 metal binding site [ion binding]; metal-binding site 469008008025 active site 469008008026 I-site; other site 469008008027 putative outer membrane lipoprotein; Provisional; Region: PRK09967 469008008028 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008008029 ligand binding site [chemical binding]; other site 469008008030 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 469008008031 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 469008008032 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 469008008033 RimM N-terminal domain; Region: RimM; pfam01782 469008008034 PRC-barrel domain; Region: PRC; pfam05239 469008008035 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 469008008036 signal recognition particle protein; Provisional; Region: PRK10867 469008008037 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 469008008038 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 469008008039 P loop; other site 469008008040 GTP binding site [chemical binding]; other site 469008008041 Signal peptide binding domain; Region: SRP_SPB; pfam02978 469008008042 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 469008008043 hypothetical protein; Provisional; Region: PRK11573 469008008044 Domain of unknown function DUF21; Region: DUF21; pfam01595 469008008045 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 469008008046 Transporter associated domain; Region: CorC_HlyC; smart01091 469008008047 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 469008008048 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 469008008049 dimer interface [polypeptide binding]; other site 469008008050 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 469008008051 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 469008008052 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 469008008053 recombination and repair protein; Provisional; Region: PRK10869 469008008054 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469008008055 Walker A/P-loop; other site 469008008056 ATP binding site [chemical binding]; other site 469008008057 Q-loop/lid; other site 469008008058 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469008008059 Q-loop/lid; other site 469008008060 ABC transporter signature motif; other site 469008008061 Walker B; other site 469008008062 D-loop; other site 469008008063 H-loop/switch region; other site 469008008064 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 469008008065 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 469008008066 hypothetical protein; Validated; Region: PRK01777 469008008067 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 469008008068 putative coenzyme Q binding site [chemical binding]; other site 469008008069 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 469008008070 SmpB-tmRNA interface; other site 469008008071 integrase; Provisional; Region: PRK09692 469008008072 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 469008008073 active site 469008008074 Int/Topo IB signature motif; other site 469008008075 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469008008076 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 469008008077 catalytic residues [active] 469008008078 catalytic nucleophile [active] 469008008079 Recombinase; Region: Recombinase; pfam07508 469008008080 ParB-like nuclease domain; Region: ParBc; pfam02195 469008008081 RepB plasmid partitioning protein; Region: RepB; pfam07506 469008008082 ParB-like nuclease domain; Region: ParB; smart00470 469008008083 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 469008008084 RepB plasmid partitioning protein; Region: RepB; pfam07506 469008008085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008086 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008087 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008088 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008090 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008091 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008092 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008093 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 469008008094 substrate binding pocket [chemical binding]; other site 469008008095 active site 469008008096 iron coordination sites [ion binding]; other site 469008008097 Predicted dehydrogenase [General function prediction only]; Region: COG0579 469008008098 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469008008099 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 469008008100 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 469008008101 tetramerization interface [polypeptide binding]; other site 469008008102 NAD(P) binding site [chemical binding]; other site 469008008103 catalytic residues [active] 469008008104 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 469008008105 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 469008008106 inhibitor-cofactor binding pocket; inhibition site 469008008107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008108 catalytic residue [active] 469008008109 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 469008008110 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 469008008111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008008112 DNA-binding site [nucleotide binding]; DNA binding site 469008008113 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008008114 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 469008008115 bacterial OsmY and nodulation domain; Region: BON; smart00749 469008008116 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008008117 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 469008008118 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 469008008119 dimerization interface [polypeptide binding]; other site 469008008120 putative DNA binding site [nucleotide binding]; other site 469008008121 Transcriptional regulators [Transcription]; Region: MarR; COG1846 469008008122 putative Zn2+ binding site [ion binding]; other site 469008008123 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 469008008124 active site residue [active] 469008008125 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 469008008126 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 469008008127 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 469008008128 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 469008008129 hypothetical protein; Provisional; Region: PRK10556 469008008130 hypothetical protein; Provisional; Region: PRK10132 469008008131 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 469008008132 catalytic residues [active] 469008008133 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 469008008134 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 469008008135 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 469008008136 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469008008137 active site 469008008138 dimer interface [polypeptide binding]; other site 469008008139 catalytic residues [active] 469008008140 effector binding site; other site 469008008141 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 469008008142 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 469008008143 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469008008144 dimer interface [polypeptide binding]; other site 469008008145 putative radical transfer pathway; other site 469008008146 diiron center [ion binding]; other site 469008008147 tyrosyl radical; other site 469008008148 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 469008008149 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 469008008150 Walker A/P-loop; other site 469008008151 ATP binding site [chemical binding]; other site 469008008152 Q-loop/lid; other site 469008008153 ABC transporter signature motif; other site 469008008154 Walker B; other site 469008008155 D-loop; other site 469008008156 H-loop/switch region; other site 469008008157 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 469008008158 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 469008008159 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 469008008160 dimer interface [polypeptide binding]; other site 469008008161 conserved gate region; other site 469008008162 putative PBP binding loops; other site 469008008163 ABC-ATPase subunit interface; other site 469008008164 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 469008008165 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 469008008166 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 469008008167 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008168 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 469008008169 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 469008008170 putative L-valine exporter; Provisional; Region: PRK10408 469008008171 transcriptional repressor MprA; Provisional; Region: PRK10870 469008008172 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008008173 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 469008008174 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008008175 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008008176 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 469008008177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008178 putative substrate translocation pore; other site 469008008179 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008180 S-ribosylhomocysteinase; Provisional; Region: PRK02260 469008008181 glutamate--cysteine ligase; Provisional; Region: PRK02107 469008008182 Predicted membrane protein [Function unknown]; Region: COG1238 469008008183 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 469008008184 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 469008008185 motif II; other site 469008008186 carbon storage regulator; Provisional; Region: PRK01712 469008008187 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 469008008188 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 469008008189 motif 1; other site 469008008190 active site 469008008191 motif 2; other site 469008008192 motif 3; other site 469008008193 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469008008194 DHHA1 domain; Region: DHHA1; pfam02272 469008008195 recombination regulator RecX; Reviewed; Region: recX; PRK00117 469008008196 recombinase A; Provisional; Region: recA; PRK09354 469008008197 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 469008008198 hexamer interface [polypeptide binding]; other site 469008008199 Walker A motif; other site 469008008200 ATP binding site [chemical binding]; other site 469008008201 Walker B motif; other site 469008008202 hypothetical protein; Validated; Region: PRK03661 469008008203 Transglycosylase SLT domain; Region: SLT_2; pfam13406 469008008204 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 469008008205 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008008206 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 469008008207 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 469008008208 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 469008008209 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 469008008210 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 469008008211 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 469008008212 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 469008008213 putative NAD(P) binding site [chemical binding]; other site 469008008214 active site 469008008215 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 469008008216 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 469008008217 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008008218 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008219 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 469008008220 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 469008008221 putative active site [active] 469008008222 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 469008008223 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 469008008224 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008225 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 469008008226 Walker A motif; other site 469008008227 ATP binding site [chemical binding]; other site 469008008228 Walker B motif; other site 469008008229 arginine finger; other site 469008008230 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 469008008231 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469008008232 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469008008233 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 469008008234 iron binding site [ion binding]; other site 469008008235 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 469008008236 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008237 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 469008008238 Acylphosphatase; Region: Acylphosphatase; pfam00708 469008008239 HypF finger; Region: zf-HYPF; pfam07503 469008008240 HypF finger; Region: zf-HYPF; pfam07503 469008008241 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 469008008242 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 469008008243 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 469008008244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008008245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008246 DNA binding site [nucleotide binding] 469008008247 domain linker motif; other site 469008008248 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 469008008249 dimerization interface (closed form) [polypeptide binding]; other site 469008008250 ligand binding site [chemical binding]; other site 469008008251 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 469008008252 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 469008008253 active site turn [active] 469008008254 phosphorylation site [posttranslational modification] 469008008255 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008008256 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 469008008257 beta-galactosidase; Region: BGL; TIGR03356 469008008258 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 469008008259 nickel binding site [ion binding]; other site 469008008260 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 469008008261 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 469008008262 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 469008008263 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 469008008264 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 469008008265 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 469008008266 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 469008008267 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 469008008268 NADH dehydrogenase; Region: NADHdh; cl00469 469008008269 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 469008008270 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 469008008271 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008008272 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 469008008273 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 469008008274 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 469008008275 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 469008008276 hydrogenase assembly chaperone; Provisional; Region: PRK10409 469008008277 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 469008008278 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 469008008279 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 469008008280 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 469008008281 dimerization interface [polypeptide binding]; other site 469008008282 ATP binding site [chemical binding]; other site 469008008283 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 469008008284 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008285 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008286 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 469008008287 Walker A motif; other site 469008008288 ATP binding site [chemical binding]; other site 469008008289 Walker B motif; other site 469008008290 arginine finger; other site 469008008291 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 469008008292 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 469008008293 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 469008008294 MutS domain I; Region: MutS_I; pfam01624 469008008295 MutS domain II; Region: MutS_II; pfam05188 469008008296 MutS domain III; Region: MutS_III; pfam05192 469008008297 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 469008008298 Walker A/P-loop; other site 469008008299 ATP binding site [chemical binding]; other site 469008008300 Q-loop/lid; other site 469008008301 ABC transporter signature motif; other site 469008008302 Walker B; other site 469008008303 D-loop; other site 469008008304 H-loop/switch region; other site 469008008305 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 469008008306 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008008307 active site 469008008308 metal binding site [ion binding]; metal-binding site 469008008309 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008008310 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469008008311 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008312 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 469008008313 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008008314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 469008008315 putative aldolase; Validated; Region: PRK08130 469008008316 active site 469008008317 intersubunit interface [polypeptide binding]; other site 469008008318 Zn2+ binding site [ion binding]; other site 469008008319 hypothetical protein; Provisional; Region: PRK09989 469008008320 putative transporter; Provisional; Region: PRK09821 469008008321 GntP family permease; Region: GntP_permease; pfam02447 469008008322 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 469008008323 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469008008324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008008325 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469008008326 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 469008008327 DNA binding residues [nucleotide binding] 469008008328 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 469008008329 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008008330 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008008331 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 469008008332 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 469008008333 S-adenosylmethionine binding site [chemical binding]; other site 469008008334 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 469008008335 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 469008008336 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 469008008337 Permutation of conserved domain; other site 469008008338 active site 469008008339 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 469008008340 homotrimer interaction site [polypeptide binding]; other site 469008008341 zinc binding site [ion binding]; other site 469008008342 CDP-binding sites; other site 469008008343 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469008008344 substrate binding site; other site 469008008345 dimer interface; other site 469008008346 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 469008008347 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 469008008348 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 469008008349 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 469008008350 ligand-binding site [chemical binding]; other site 469008008351 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 469008008352 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 469008008353 CysD dimerization site [polypeptide binding]; other site 469008008354 G1 box; other site 469008008355 putative GEF interaction site [polypeptide binding]; other site 469008008356 GTP/Mg2+ binding site [chemical binding]; other site 469008008357 Switch I region; other site 469008008358 G2 box; other site 469008008359 G3 box; other site 469008008360 Switch II region; other site 469008008361 G4 box; other site 469008008362 G5 box; other site 469008008363 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 469008008364 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 469008008365 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 469008008366 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 469008008367 Active Sites [active] 469008008368 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 469008008369 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 469008008370 metal binding site [ion binding]; metal-binding site 469008008371 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008008372 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008008373 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 469008008374 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 469008008375 Active Sites [active] 469008008376 sulfite reductase subunit beta; Provisional; Region: PRK13504 469008008377 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008008378 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008008379 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 469008008380 Flavodoxin; Region: Flavodoxin_1; pfam00258 469008008381 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 469008008382 FAD binding pocket [chemical binding]; other site 469008008383 FAD binding motif [chemical binding]; other site 469008008384 catalytic residues [active] 469008008385 NAD binding pocket [chemical binding]; other site 469008008386 phosphate binding motif [ion binding]; other site 469008008387 beta-alpha-beta structure motif; other site 469008008388 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 469008008389 homohexamer interface [polypeptide binding]; other site 469008008390 putative substrate stabilizing pore; other site 469008008391 pterin binding site; other site 469008008392 putative oxidoreductase FixC; Provisional; Region: PRK10157 469008008393 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469008008394 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 469008008395 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469008008396 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 469008008397 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469008008398 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 469008008399 Ligand binding site [chemical binding]; other site 469008008400 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469008008401 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 469008008402 benzoate transport; Region: 2A0115; TIGR00895 469008008403 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008404 putative substrate translocation pore; other site 469008008405 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469008008406 FAD binding domain; Region: FAD_binding_4; pfam01565 469008008407 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 469008008408 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 469008008409 NADP binding site [chemical binding]; other site 469008008410 homodimer interface [polypeptide binding]; other site 469008008411 active site 469008008412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469008008413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008414 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 469008008415 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008008416 nucleotide binding site [chemical binding]; other site 469008008417 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 469008008418 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 469008008419 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 469008008420 Repair protein; Region: Repair_PSII; pfam04536 469008008421 enolase; Provisional; Region: eno; PRK00077 469008008422 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 469008008423 dimer interface [polypeptide binding]; other site 469008008424 metal binding site [ion binding]; metal-binding site 469008008425 substrate binding pocket [chemical binding]; other site 469008008426 CTP synthetase; Validated; Region: pyrG; PRK05380 469008008427 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 469008008428 Catalytic site [active] 469008008429 active site 469008008430 UTP binding site [chemical binding]; other site 469008008431 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 469008008432 active site 469008008433 putative oxyanion hole; other site 469008008434 catalytic triad [active] 469008008435 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 469008008436 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 469008008437 homodimer interface [polypeptide binding]; other site 469008008438 metal binding site [ion binding]; metal-binding site 469008008439 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 469008008440 homodimer interface [polypeptide binding]; other site 469008008441 active site 469008008442 putative chemical substrate binding site [chemical binding]; other site 469008008443 metal binding site [ion binding]; metal-binding site 469008008444 toxin MazF; Provisional; Region: PRK09907 469008008445 antitoxin MazE; Provisional; Region: PRK09798 469008008446 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 469008008447 HD domain; Region: HD_4; pfam13328 469008008448 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469008008449 synthetase active site [active] 469008008450 NTP binding site [chemical binding]; other site 469008008451 metal binding site [ion binding]; metal-binding site 469008008452 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 469008008453 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469008008454 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 469008008455 TRAM domain; Region: TRAM; pfam01938 469008008456 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 469008008457 S-adenosylmethionine binding site [chemical binding]; other site 469008008458 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 469008008459 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 469008008460 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 469008008461 dimerization interface [polypeptide binding]; other site 469008008462 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 469008008463 dimer interface [polypeptide binding]; other site 469008008464 phosphorylation site [posttranslational modification] 469008008465 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 469008008466 ATP binding site [chemical binding]; other site 469008008467 Mg2+ binding site [ion binding]; other site 469008008468 G-X-G motif; other site 469008008469 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 469008008470 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 469008008471 active site 469008008472 phosphorylation site [posttranslational modification] 469008008473 intermolecular recognition site; other site 469008008474 dimerization interface [polypeptide binding]; other site 469008008475 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 469008008476 putative binding surface; other site 469008008477 active site 469008008478 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 469008008479 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 469008008480 active site 469008008481 tetramer interface [polypeptide binding]; other site 469008008482 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 469008008483 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 469008008484 active site 469008008485 tetramer interface [polypeptide binding]; other site 469008008486 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008487 D-galactonate transporter; Region: 2A0114; TIGR00893 469008008488 putative substrate translocation pore; other site 469008008489 flavodoxin; Provisional; Region: PRK08105 469008008490 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469008008491 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 469008008492 probable active site [active] 469008008493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 469008008494 SecY interacting protein Syd; Provisional; Region: PRK04968 469008008495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 469008008496 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 469008008497 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 469008008498 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 469008008499 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 469008008500 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008008501 serine transporter; Region: stp; TIGR00814 469008008502 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 469008008503 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008008504 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008008505 flap endonuclease-like protein; Provisional; Region: PRK09482 469008008506 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469008008507 active site 469008008508 metal binding site 1 [ion binding]; metal-binding site 469008008509 putative 5' ssDNA interaction site; other site 469008008510 metal binding site 3; metal-binding site 469008008511 metal binding site 2 [ion binding]; metal-binding site 469008008512 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469008008513 putative DNA binding site [nucleotide binding]; other site 469008008514 putative metal binding site [ion binding]; other site 469008008515 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 469008008516 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 469008008517 dimer interface [polypeptide binding]; other site 469008008518 active site 469008008519 metal binding site [ion binding]; metal-binding site 469008008521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008522 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008523 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008524 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008525 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008008526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008008527 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008008528 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008008530 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008008531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008532 DNA binding site [nucleotide binding] 469008008533 domain linker motif; other site 469008008534 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 469008008535 dimerization interface [polypeptide binding]; other site 469008008536 ligand binding site [chemical binding]; other site 469008008537 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 469008008538 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 469008008539 N- and C-terminal domain interface [polypeptide binding]; other site 469008008540 active site 469008008541 MgATP binding site [chemical binding]; other site 469008008542 catalytic site [active] 469008008543 metal binding site [ion binding]; metal-binding site 469008008544 carbohydrate binding site [chemical binding]; other site 469008008545 putative homodimer interface [polypeptide binding]; other site 469008008546 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 469008008547 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 469008008548 putative ligand binding site [chemical binding]; other site 469008008549 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008008550 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 469008008551 TM-ABC transporter signature motif; other site 469008008552 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008008553 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008008554 Walker A/P-loop; other site 469008008555 ATP binding site [chemical binding]; other site 469008008556 Q-loop/lid; other site 469008008557 ABC transporter signature motif; other site 469008008558 Walker B; other site 469008008559 D-loop; other site 469008008560 H-loop/switch region; other site 469008008561 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008008562 L-fucose isomerase; Provisional; Region: fucI; PRK10991 469008008563 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 469008008564 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469008008565 trimer interface [polypeptide binding]; other site 469008008566 substrate binding site [chemical binding]; other site 469008008567 Mn binding site [ion binding]; other site 469008008568 L-fuculokinase; Provisional; Region: PRK10331 469008008569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008008570 nucleotide binding site [chemical binding]; other site 469008008571 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 469008008572 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 469008008573 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008008574 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008008575 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 469008008576 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 469008008577 hypothetical protein; Provisional; Region: PRK10873 469008008578 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 469008008579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008580 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 469008008581 dimerization interface [polypeptide binding]; other site 469008008582 substrate binding pocket [chemical binding]; other site 469008008583 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 469008008584 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 469008008585 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 469008008586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008008587 catalytic residue [active] 469008008588 CsdA-binding activator; Provisional; Region: PRK15019 469008008589 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 469008008590 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 469008008591 putative ATP binding site [chemical binding]; other site 469008008592 putative substrate interface [chemical binding]; other site 469008008593 murein transglycosylase A; Provisional; Region: mltA; PRK11162 469008008594 MltA specific insert domain; Region: MltA; pfam03562 469008008595 3D domain; Region: 3D; pfam06725 469008008596 AMIN domain; Region: AMIN; pfam11741 469008008597 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 469008008598 active site 469008008599 metal binding site [ion binding]; metal-binding site 469008008600 N-acetylglutamate synthase; Validated; Region: PRK05279 469008008601 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 469008008602 putative feedback inhibition sensing region; other site 469008008603 putative nucleotide binding site [chemical binding]; other site 469008008604 putative substrate binding site [chemical binding]; other site 469008008605 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008008606 Coenzyme A binding pocket [chemical binding]; other site 469008008607 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 469008008608 AAA domain; Region: AAA_30; pfam13604 469008008609 Family description; Region: UvrD_C_2; pfam13538 469008008610 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 469008008611 protease3; Provisional; Region: PRK15101 469008008612 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469008008613 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008008614 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008008615 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 469008008616 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 469008008617 hypothetical protein; Provisional; Region: PRK10332 469008008618 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 469008008619 hypothetical protein; Provisional; Region: PRK11521 469008008620 hypothetical protein; Provisional; Region: PRK10557 469008008621 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008008622 hypothetical protein; Provisional; Region: PRK10506 469008008623 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469008008624 thymidylate synthase; Reviewed; Region: thyA; PRK01827 469008008625 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 469008008626 dimerization interface [polypeptide binding]; other site 469008008627 active site 469008008628 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 469008008629 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 469008008630 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 469008008631 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008008632 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008008633 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008008634 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 469008008635 putative active site [active] 469008008636 Ap4A binding site [chemical binding]; other site 469008008637 nudix motif; other site 469008008638 putative metal binding site [ion binding]; other site 469008008639 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 469008008640 putative DNA-binding cleft [nucleotide binding]; other site 469008008641 putative DNA clevage site; other site 469008008642 molecular lever; other site 469008008643 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 469008008644 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 469008008645 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 469008008646 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008008647 active site 469008008648 catalytic tetrad [active] 469008008649 lysophospholipid transporter LplT; Provisional; Region: PRK11195 469008008650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008651 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 469008008652 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469008008653 putative acyl-acceptor binding pocket; other site 469008008654 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 469008008655 acyl-activating enzyme (AAE) consensus motif; other site 469008008656 putative AMP binding site [chemical binding]; other site 469008008657 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 469008008658 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008008659 DNA binding site [nucleotide binding] 469008008660 domain linker motif; other site 469008008661 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 469008008662 dimerization interface (closed form) [polypeptide binding]; other site 469008008663 ligand binding site [chemical binding]; other site 469008008664 diaminopimelate decarboxylase; Provisional; Region: PRK11165 469008008665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 469008008666 active site 469008008667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008668 substrate binding site [chemical binding]; other site 469008008669 catalytic residues [active] 469008008670 dimer interface [polypeptide binding]; other site 469008008671 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 469008008672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008673 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 469008008674 putative dimerization interface [polypeptide binding]; other site 469008008675 putative racemase; Provisional; Region: PRK10200 469008008676 aspartate racemase; Region: asp_race; TIGR00035 469008008677 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 469008008678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008679 putative substrate translocation pore; other site 469008008680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008683 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008684 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008685 putative transposase OrfB; Reviewed; Region: PHA02517 469008008686 HTH-like domain; Region: HTH_21; pfam13276 469008008687 Integrase core domain; Region: rve; pfam00665 469008008688 Integrase core domain; Region: rve_2; pfam13333 469008008689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008690 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008691 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008008692 putative transposase OrfB; Reviewed; Region: PHA02517 469008008693 HTH-like domain; Region: HTH_21; pfam13276 469008008694 Integrase core domain; Region: rve; pfam00665 469008008695 Integrase core domain; Region: rve_2; pfam13333 469008008696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008008697 NAD(P) binding site [chemical binding]; other site 469008008698 active site 469008008699 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 469008008700 putative acyltransferase; Provisional; Region: PRK05790 469008008701 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 469008008702 dimer interface [polypeptide binding]; other site 469008008703 active site 469008008704 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008008705 serine transporter; Region: stp; TIGR00814 469008008706 Transposase; Region: HTH_Tnp_1; pfam01527 469008008707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008708 putative transposase OrfB; Reviewed; Region: PHA02517 469008008709 HTH-like domain; Region: HTH_21; pfam13276 469008008710 Integrase core domain; Region: rve; pfam00665 469008008711 Integrase core domain; Region: rve_2; pfam13333 469008008712 Transposase; Region: HTH_Tnp_1; cl17663 469008008713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008008714 putative transposase OrfB; Reviewed; Region: PHA02517 469008008715 HTH-like domain; Region: HTH_21; pfam13276 469008008716 Integrase core domain; Region: rve; pfam00665 469008008717 Integrase core domain; Region: rve_2; pfam13333 469008008718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469008008719 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008008720 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 469008008721 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008008722 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008008723 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 469008008724 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 469008008725 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 469008008726 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 469008008727 catalytic loop [active] 469008008728 iron binding site [ion binding]; other site 469008008729 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008008730 GAF domain; Region: GAF; cl17456 469008008731 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 469008008732 PAS domain; Region: PAS; smart00091 469008008733 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 469008008734 Walker A motif; other site 469008008735 ATP binding site [chemical binding]; other site 469008008736 Walker B motif; other site 469008008737 arginine finger; other site 469008008738 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008008739 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 469008008740 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008008741 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008008742 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 469008008743 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 469008008744 catalytic residue [active] 469008008745 peptidase; Reviewed; Region: PRK13004 469008008746 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 469008008747 putative metal binding site [ion binding]; other site 469008008748 putative dimer interface [polypeptide binding]; other site 469008008749 D-hydantoinase; Region: D-hydantoinase; TIGR02033 469008008750 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 469008008751 tetramer interface [polypeptide binding]; other site 469008008752 active site 469008008753 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 469008008754 carbamate kinase; Reviewed; Region: PRK12686 469008008755 putative substrate binding site [chemical binding]; other site 469008008756 homodimer interface [polypeptide binding]; other site 469008008757 nucleotide binding site [chemical binding]; other site 469008008758 nucleotide binding site [chemical binding]; other site 469008008759 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 469008008760 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 469008008761 XdhC Rossmann domain; Region: XdhC_C; pfam13478 469008008762 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 469008008763 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 469008008764 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 469008008765 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 469008008766 Ligand binding site; other site 469008008767 metal-binding site 469008008768 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 469008008769 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 469008008770 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008008771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008772 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 469008008773 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 469008008774 active site 469008008775 putative substrate binding pocket [chemical binding]; other site 469008008776 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 469008008777 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 469008008778 putative hypoxanthine oxidase; Provisional; Region: PRK09800 469008008779 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 469008008780 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 469008008781 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 469008008782 uracil-xanthine permease; Region: ncs2; TIGR00801 469008008783 guanine deaminase; Provisional; Region: PRK09228 469008008784 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 469008008785 active site 469008008786 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008008787 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008008788 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 469008008789 4Fe-4S binding domain; Region: Fer4; pfam00037 469008008790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469008008791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008008792 xanthine permease; Region: pbuX; TIGR03173 469008008793 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 469008008794 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 469008008795 active site 469008008796 metal binding site [ion binding]; metal-binding site 469008008797 nudix motif; other site 469008008798 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 469008008799 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 469008008800 dimer interface [polypeptide binding]; other site 469008008801 putative anticodon binding site; other site 469008008802 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 469008008803 motif 1; other site 469008008804 active site 469008008805 motif 2; other site 469008008806 motif 3; other site 469008008807 peptide chain release factor 2; Validated; Region: prfB; PRK00578 469008008808 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469008008809 RF-1 domain; Region: RF-1; pfam00472 469008008810 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 469008008811 DHH family; Region: DHH; pfam01368 469008008812 DHHA1 domain; Region: DHHA1; pfam02272 469008008813 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 469008008814 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 469008008815 dimerization domain [polypeptide binding]; other site 469008008816 dimer interface [polypeptide binding]; other site 469008008817 catalytic residues [active] 469008008818 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 469008008819 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 469008008820 active site 469008008821 Int/Topo IB signature motif; other site 469008008822 flavodoxin FldB; Provisional; Region: PRK12359 469008008823 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 469008008824 hypothetical protein; Provisional; Region: PRK10878 469008008825 putative global regulator; Reviewed; Region: PRK09559 469008008826 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 469008008827 hemolysin; Provisional; Region: PRK15087 469008008828 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 469008008829 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 469008008830 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 469008008831 beta-galactosidase; Region: BGL; TIGR03356 469008008832 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 469008008833 classical (c) SDRs; Region: SDR_c; cd05233 469008008834 NAD(P) binding site [chemical binding]; other site 469008008835 active site 469008008836 glycine dehydrogenase; Provisional; Region: PRK05367 469008008837 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 469008008838 tetramer interface [polypeptide binding]; other site 469008008839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008840 catalytic residue [active] 469008008841 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 469008008842 tetramer interface [polypeptide binding]; other site 469008008843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008008844 catalytic residue [active] 469008008845 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 469008008846 lipoyl attachment site [posttranslational modification]; other site 469008008847 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 469008008848 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 469008008849 oxidoreductase; Provisional; Region: PRK08013 469008008850 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 469008008851 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 469008008852 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 469008008853 proline aminopeptidase P II; Provisional; Region: PRK10879 469008008854 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 469008008855 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 469008008856 active site 469008008857 hypothetical protein; Reviewed; Region: PRK01736 469008008858 Z-ring-associated protein; Provisional; Region: PRK10972 469008008859 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 469008008860 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 469008008861 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 469008008862 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 469008008863 ligand binding site [chemical binding]; other site 469008008864 NAD binding site [chemical binding]; other site 469008008865 tetramer interface [polypeptide binding]; other site 469008008866 catalytic site [active] 469008008867 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 469008008868 L-serine binding site [chemical binding]; other site 469008008869 ACT domain interface; other site 469008008870 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 469008008871 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008008872 active site 469008008873 dimer interface [polypeptide binding]; other site 469008008874 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 469008008875 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 469008008876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008877 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 469008008878 putative dimerization interface [polypeptide binding]; other site 469008008879 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 469008008880 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 469008008881 active site 469008008882 substrate binding site [chemical binding]; other site 469008008883 coenzyme B12 binding site [chemical binding]; other site 469008008884 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 469008008885 B12 binding site [chemical binding]; other site 469008008886 cobalt ligand [ion binding]; other site 469008008887 membrane ATPase/protein kinase; Provisional; Region: PRK09435 469008008888 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 469008008889 Walker A; other site 469008008890 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 469008008891 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 469008008892 substrate binding site [chemical binding]; other site 469008008893 oxyanion hole (OAH) forming residues; other site 469008008894 trimer interface [polypeptide binding]; other site 469008008895 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 469008008896 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 469008008897 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469008008898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008008899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008008900 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 469008008901 dimerization interface [polypeptide binding]; other site 469008008902 Uncharacterized conserved protein [Function unknown]; Region: COG2968 469008008903 oxidative stress defense protein; Provisional; Region: PRK11087 469008008904 arginine exporter protein; Provisional; Region: PRK09304 469008008905 mechanosensitive channel MscS; Provisional; Region: PRK10334 469008008906 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008008907 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008008908 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 469008008909 active site 469008008910 intersubunit interface [polypeptide binding]; other site 469008008911 zinc binding site [ion binding]; other site 469008008912 Na+ binding site [ion binding]; other site 469008008913 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 469008008914 Phosphoglycerate kinase; Region: PGK; pfam00162 469008008915 substrate binding site [chemical binding]; other site 469008008916 hinge regions; other site 469008008917 ADP binding site [chemical binding]; other site 469008008918 catalytic site [active] 469008008919 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 469008008920 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469008008921 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469008008922 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 469008008923 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 469008008924 active site 469008008925 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 469008008926 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 469008008927 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 469008008928 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469008008929 putative active site [active] 469008008930 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 469008008931 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008008932 putative NAD(P) binding site [chemical binding]; other site 469008008933 catalytic Zn binding site [ion binding]; other site 469008008934 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 469008008935 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 469008008936 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 469008008937 active site 469008008938 P-loop; other site 469008008939 phosphorylation site [posttranslational modification] 469008008940 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 469008008941 active site 469008008942 phosphorylation site [posttranslational modification] 469008008943 transketolase; Reviewed; Region: PRK12753 469008008944 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 469008008945 TPP-binding site [chemical binding]; other site 469008008946 dimer interface [polypeptide binding]; other site 469008008947 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 469008008948 PYR/PP interface [polypeptide binding]; other site 469008008949 dimer interface [polypeptide binding]; other site 469008008950 TPP binding site [chemical binding]; other site 469008008951 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469008008952 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 469008008953 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 469008008954 agmatinase; Region: agmatinase; TIGR01230 469008008955 oligomer interface [polypeptide binding]; other site 469008008956 putative active site [active] 469008008957 Mn binding site [ion binding]; other site 469008008958 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 469008008959 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 469008008960 dimer interface [polypeptide binding]; other site 469008008961 active site 469008008962 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008963 catalytic residues [active] 469008008964 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 469008008965 Virulence promoting factor; Region: YqgB; pfam11036 469008008966 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 469008008967 S-adenosylmethionine synthetase; Validated; Region: PRK05250 469008008968 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 469008008969 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 469008008970 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 469008008971 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 469008008972 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008973 putative substrate translocation pore; other site 469008008974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008008975 hypothetical protein; Provisional; Region: PRK04860 469008008976 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 469008008977 DNA-specific endonuclease I; Provisional; Region: PRK15137 469008008978 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 469008008979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 469008008980 RNA methyltransferase, RsmE family; Region: TIGR00046 469008008981 glutathione synthetase; Provisional; Region: PRK05246 469008008982 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 469008008983 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 469008008984 hypothetical protein; Validated; Region: PRK00228 469008008985 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 469008008986 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 469008008987 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 469008008988 Walker A motif; other site 469008008989 ATP binding site [chemical binding]; other site 469008008990 Walker B motif; other site 469008008991 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 469008008992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008008993 catalytic residue [active] 469008008994 YGGT family; Region: YGGT; pfam02325 469008008995 YGGT family; Region: YGGT; pfam02325 469008008996 hypothetical protein; Validated; Region: PRK05090 469008008997 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 469008008998 active site 469008008999 dimerization interface [polypeptide binding]; other site 469008009000 HemN family oxidoreductase; Provisional; Region: PRK05660 469008009001 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 469008009002 FeS/SAM binding site; other site 469008009003 HemN C-terminal domain; Region: HemN_C; pfam06969 469008009004 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 469008009005 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 469008009006 homodimer interface [polypeptide binding]; other site 469008009007 active site 469008009008 hypothetical protein; Provisional; Region: PRK10626 469008009009 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 469008009010 hypothetical protein; Provisional; Region: PRK11702 469008009011 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 469008009012 adenine DNA glycosylase; Provisional; Region: PRK10880 469008009013 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469008009014 minor groove reading motif; other site 469008009015 helix-hairpin-helix signature motif; other site 469008009016 substrate binding pocket [chemical binding]; other site 469008009017 active site 469008009018 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 469008009019 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 469008009020 DNA binding and oxoG recognition site [nucleotide binding] 469008009021 oxidative damage protection protein; Provisional; Region: PRK05408 469008009022 murein transglycosylase C; Provisional; Region: mltC; PRK11671 469008009023 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 469008009024 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 469008009025 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008009026 catalytic residue [active] 469008009027 nucleoside transporter; Region: 2A0110; TIGR00889 469008009028 ornithine decarboxylase; Provisional; Region: PRK13578 469008009029 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008009030 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 469008009031 homodimer interface [polypeptide binding]; other site 469008009032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009033 catalytic residue [active] 469008009034 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008009035 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 469008009036 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 469008009037 Methyltransferase domain; Region: Methyltransf_27; pfam13708 469008009038 KpsF/GutQ family protein; Region: kpsF; TIGR00393 469008009039 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 469008009040 putative active site [active] 469008009041 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 469008009042 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 469008009043 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 469008009044 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 469008009045 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469008009046 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469008009047 Ligand binding site; other site 469008009048 oligomer interface; other site 469008009049 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 469008009050 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 469008009051 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 469008009052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008009053 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008009054 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008009055 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008009056 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008009057 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008009058 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008009059 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008009060 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469008009061 substrate binding site; other site 469008009062 dimer interface; other site 469008009063 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 469008009064 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469008009065 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 469008009066 Walker A/P-loop; other site 469008009067 ATP binding site [chemical binding]; other site 469008009068 Q-loop/lid; other site 469008009069 ABC transporter signature motif; other site 469008009070 Walker B; other site 469008009071 D-loop; other site 469008009072 H-loop/switch region; other site 469008009073 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 469008009074 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008009075 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 469008009076 GspL-like protein; Provisional; Region: PRK09662 469008009077 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 469008009078 type II secretion system protein J; Region: gspJ; TIGR01711 469008009079 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 469008009080 type II secretion system protein I; Region: gspI; TIGR01707 469008009081 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 469008009082 Type II transport protein GspH; Region: GspH; pfam12019 469008009083 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008009084 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 469008009085 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 469008009086 type II secretion system protein F; Region: GspF; TIGR02120 469008009087 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008009088 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008009089 type II secretion system protein E; Region: type_II_gspE; TIGR02533 469008009090 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 469008009091 Walker A motif; other site 469008009092 ATP binding site [chemical binding]; other site 469008009093 Walker B motif; other site 469008009094 type II secretion system protein D; Region: type_II_gspD; TIGR02517 469008009095 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008009096 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008009097 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008009098 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008009099 putative type II secretion protein GspC; Provisional; Region: PRK09681 469008009100 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 469008009101 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 469008009102 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 469008009103 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 469008009104 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469008009105 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 469008009106 Peptidase M60-like family; Region: M60-like; pfam13402 469008009107 glycolate transporter; Provisional; Region: PRK09695 469008009108 L-lactate permease; Region: Lactate_perm; cl00701 469008009109 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 469008009110 active site 469008009111 hypothetical protein; Provisional; Region: PRK09732 469008009112 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 469008009113 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 469008009114 Cysteine-rich domain; Region: CCG; pfam02754 469008009115 Cysteine-rich domain; Region: CCG; pfam02754 469008009116 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 469008009117 FAD binding domain; Region: FAD_binding_4; pfam01565 469008009118 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 469008009119 FAD binding domain; Region: FAD_binding_4; pfam01565 469008009120 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 469008009121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008009122 DNA-binding site [nucleotide binding]; DNA binding site 469008009123 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008009124 acyl-CoA synthetase; Validated; Region: PRK09192 469008009125 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 469008009126 acyl-activating enzyme (AAE) consensus motif; other site 469008009127 active site 469008009128 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469008009129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469008009130 NAD(P) binding site [chemical binding]; other site 469008009131 active site 469008009132 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008009133 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 469008009134 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008009135 catalytic residue [active] 469008009136 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 469008009137 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008009138 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008009139 Predicted permeases [General function prediction only]; Region: COG0795 469008009140 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 469008009141 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469008009142 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 469008009143 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 469008009144 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 469008009145 active site 469008009146 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 469008009147 TMP-binding site; other site 469008009148 ATP-binding site [chemical binding]; other site 469008009149 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 469008009150 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 469008009151 TMP-binding site; other site 469008009152 ATP-binding site [chemical binding]; other site 469008009153 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008009154 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008009155 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 469008009156 CHAP domain; Region: CHAP; pfam05257 469008009157 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008009158 putative S-transferase; Provisional; Region: PRK11752 469008009159 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 469008009160 C-terminal domain interface [polypeptide binding]; other site 469008009161 GSH binding site (G-site) [chemical binding]; other site 469008009162 dimer interface [polypeptide binding]; other site 469008009163 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 469008009164 dimer interface [polypeptide binding]; other site 469008009165 N-terminal domain interface [polypeptide binding]; other site 469008009166 active site 469008009167 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 469008009168 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 469008009169 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 469008009170 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 469008009171 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 469008009172 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 469008009173 putative substrate-binding site; other site 469008009174 nickel binding site [ion binding]; other site 469008009175 hydrogenase 2 large subunit; Provisional; Region: PRK10467 469008009176 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 469008009177 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 469008009178 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 469008009179 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 469008009180 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469008009181 hydrogenase 2 small subunit; Provisional; Region: PRK10468 469008009182 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 469008009183 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 469008009184 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 469008009185 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 469008009186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008009187 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 469008009188 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008009189 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 469008009190 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008009191 active site 469008009192 catalytic tetrad [active] 469008009193 hypothetical protein; Provisional; Region: PRK05208 469008009194 oxidoreductase; Provisional; Region: PRK07985 469008009195 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 469008009196 NAD binding site [chemical binding]; other site 469008009197 metal binding site [ion binding]; metal-binding site 469008009198 active site 469008009199 biopolymer transport protein ExbD; Provisional; Region: PRK11267 469008009200 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469008009201 biopolymer transport protein ExbB; Provisional; Region: PRK10414 469008009202 cystathionine beta-lyase; Provisional; Region: PRK08114 469008009203 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 469008009204 homodimer interface [polypeptide binding]; other site 469008009205 substrate-cofactor binding pocket; other site 469008009206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009207 catalytic residue [active] 469008009208 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008009209 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 469008009210 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 469008009211 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008009212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008009213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008009214 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 469008009215 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 469008009216 dimer interface [polypeptide binding]; other site 469008009217 active site 469008009218 metal binding site [ion binding]; metal-binding site 469008009219 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 469008009220 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469008009221 active site 469008009222 catalytic tetrad [active] 469008009223 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 469008009224 putative outer membrane lipoprotein; Provisional; Region: PRK09973 469008009225 hypothetical protein; Provisional; Region: PRK01254 469008009226 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 469008009227 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 469008009228 FtsI repressor; Provisional; Region: PRK10883 469008009229 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 469008009230 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 469008009231 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 469008009232 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469008009233 putative acyl-acceptor binding pocket; other site 469008009234 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 469008009235 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 469008009236 CAP-like domain; other site 469008009237 active site 469008009238 primary dimer interface [polypeptide binding]; other site 469008009239 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469008009240 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 469008009241 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 469008009242 peptide binding site [polypeptide binding]; other site 469008009243 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 469008009244 toxin interface [polypeptide binding]; other site 469008009245 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 469008009246 Zn binding site [ion binding]; other site 469008009247 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 469008009248 non-specific DNA binding site [nucleotide binding]; other site 469008009249 salt bridge; other site 469008009250 sequence-specific DNA binding site [nucleotide binding]; other site 469008009251 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 469008009252 peptide binding site [polypeptide binding]; other site 469008009253 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 469008009254 TIGR00156 family protein; Region: TIGR00156 469008009255 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 469008009256 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 469008009257 active site 469008009258 phosphorylation site [posttranslational modification] 469008009259 intermolecular recognition site; other site 469008009260 dimerization interface [polypeptide binding]; other site 469008009261 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 469008009262 DNA binding site [nucleotide binding] 469008009263 sensor protein QseC; Provisional; Region: PRK10337 469008009264 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 469008009265 dimer interface [polypeptide binding]; other site 469008009266 phosphorylation site [posttranslational modification] 469008009267 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 469008009268 ATP binding site [chemical binding]; other site 469008009269 Mg2+ binding site [ion binding]; other site 469008009270 G-X-G motif; other site 469008009271 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 469008009272 Uncharacterized conserved protein [Function unknown]; Region: COG1359 469008009273 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 469008009274 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 469008009275 ATP binding site [chemical binding]; other site 469008009276 Mg2+ binding site [ion binding]; other site 469008009277 G-X-G motif; other site 469008009278 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 469008009279 anchoring element; other site 469008009280 dimer interface [polypeptide binding]; other site 469008009281 ATP binding site [chemical binding]; other site 469008009282 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 469008009283 active site 469008009284 metal binding site [ion binding]; metal-binding site 469008009285 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469008009286 esterase YqiA; Provisional; Region: PRK11071 469008009287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469008009288 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 469008009289 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469008009290 active site 469008009291 metal binding site [ion binding]; metal-binding site 469008009292 hexamer interface [polypeptide binding]; other site 469008009293 putative dehydrogenase; Provisional; Region: PRK11039 469008009294 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 469008009295 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 469008009296 dimer interface [polypeptide binding]; other site 469008009297 ADP-ribose binding site [chemical binding]; other site 469008009298 active site 469008009299 nudix motif; other site 469008009300 metal binding site [ion binding]; metal-binding site 469008009301 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 469008009302 hypothetical protein; Provisional; Region: PRK11653 469008009303 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008009304 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 469008009305 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008009306 putative active site [active] 469008009307 metal binding site [ion binding]; metal-binding site 469008009308 zinc transporter ZupT; Provisional; Region: PRK04201 469008009309 ZIP Zinc transporter; Region: Zip; pfam02535 469008009310 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 469008009311 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 469008009312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 469008009313 putative fimbrial protein; Provisional; Region: PRK09733 469008009314 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008009315 PapC N-terminal domain; Region: PapC_N; pfam13954 469008009316 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008009317 PapC C-terminal domain; Region: PapC_C; pfam13953 469008009318 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008009319 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008009320 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008009321 Fimbrial protein; Region: Fimbrial; pfam00419 469008009322 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 469008009323 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 469008009324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 469008009325 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 469008009326 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 469008009327 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 469008009328 putative ribose interaction site [chemical binding]; other site 469008009329 putative ADP binding site [chemical binding]; other site 469008009330 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 469008009331 active site 469008009332 nucleotide binding site [chemical binding]; other site 469008009333 HIGH motif; other site 469008009334 KMSKS motif; other site 469008009335 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 469008009336 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008009337 metal binding triad; other site 469008009338 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008009339 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 469008009340 metal binding triad; other site 469008009341 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 469008009342 Uncharacterized conserved protein [Function unknown]; Region: COG3025 469008009343 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 469008009344 putative active site [active] 469008009345 putative metal binding residues [ion binding]; other site 469008009346 signature motif; other site 469008009347 putative triphosphate binding site [ion binding]; other site 469008009348 CHAD domain; Region: CHAD; pfam05235 469008009349 SH3 domain-containing protein; Provisional; Region: PRK10884 469008009350 Bacterial SH3 domain homologues; Region: SH3b; smart00287 469008009351 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 469008009352 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469008009353 active site 469008009354 NTP binding site [chemical binding]; other site 469008009355 metal binding triad [ion binding]; metal-binding site 469008009356 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469008009357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008009358 Zn2+ binding site [ion binding]; other site 469008009359 Mg2+ binding site [ion binding]; other site 469008009360 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 469008009361 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 469008009362 homooctamer interface [polypeptide binding]; other site 469008009363 active site 469008009364 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 469008009365 transcriptional activator TtdR; Provisional; Region: PRK09801 469008009366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009367 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 469008009368 putative effector binding pocket; other site 469008009369 putative dimerization interface [polypeptide binding]; other site 469008009370 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 469008009371 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 469008009372 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 469008009373 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 469008009374 transmembrane helices; other site 469008009375 UGMP family protein; Validated; Region: PRK09604 469008009376 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 469008009377 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 469008009378 DNA primase; Validated; Region: dnaG; PRK05667 469008009379 CHC2 zinc finger; Region: zf-CHC2; pfam01807 469008009380 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 469008009381 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 469008009382 active site 469008009383 metal binding site [ion binding]; metal-binding site 469008009384 interdomain interaction site; other site 469008009385 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 469008009386 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 469008009387 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 469008009388 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 469008009389 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469008009390 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 469008009391 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008009392 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469008009393 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 469008009394 DNA binding residues [nucleotide binding] 469008009395 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 469008009396 active site 469008009397 SUMO-1 interface [polypeptide binding]; other site 469008009398 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 469008009399 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 469008009400 FAD binding pocket [chemical binding]; other site 469008009401 FAD binding motif [chemical binding]; other site 469008009402 phosphate binding motif [ion binding]; other site 469008009403 NAD binding pocket [chemical binding]; other site 469008009404 Predicted transcriptional regulators [Transcription]; Region: COG1695 469008009405 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 469008009406 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 469008009407 PAS fold; Region: PAS_3; pfam08447 469008009408 putative active site [active] 469008009409 heme pocket [chemical binding]; other site 469008009410 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 469008009411 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008009412 dimer interface [polypeptide binding]; other site 469008009413 putative CheW interface [polypeptide binding]; other site 469008009414 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 469008009415 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 469008009416 inhibitor-cofactor binding pocket; inhibition site 469008009417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009418 catalytic residue [active] 469008009419 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 469008009420 dimer interface [polypeptide binding]; other site 469008009421 putative tRNA-binding site [nucleotide binding]; other site 469008009422 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 469008009423 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008009424 DNA binding site [nucleotide binding] 469008009425 domain linker motif; other site 469008009426 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 469008009427 putative dimerization interface [polypeptide binding]; other site 469008009428 putative ligand binding site [chemical binding]; other site 469008009429 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 469008009430 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 469008009431 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 469008009432 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 469008009433 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 469008009434 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 469008009435 inner membrane transporter YjeM; Provisional; Region: PRK15238 469008009436 alpha-glucosidase; Provisional; Region: PRK10137 469008009437 Protein of unknown function, DUF608; Region: DUF608; pfam04685 469008009438 Trehalase; Region: Trehalase; cl17346 469008009439 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469008009440 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 469008009441 active site 469008009442 FMN binding site [chemical binding]; other site 469008009443 2,4-decadienoyl-CoA binding site; other site 469008009444 catalytic residue [active] 469008009445 4Fe-4S cluster binding site [ion binding]; other site 469008009446 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 469008009447 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 469008009448 non-specific DNA binding site [nucleotide binding]; other site 469008009449 salt bridge; other site 469008009450 sequence-specific DNA binding site [nucleotide binding]; other site 469008009451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 469008009452 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 469008009453 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 469008009454 S-adenosylmethionine binding site [chemical binding]; other site 469008009455 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 469008009456 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 469008009457 putative active site [active] 469008009458 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008009459 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008009460 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 469008009461 serine/threonine transporter SstT; Provisional; Region: PRK13628 469008009462 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008009463 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 469008009464 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 469008009465 galactarate dehydratase; Region: galactar-dH20; TIGR03248 469008009466 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 469008009467 Glucuronate isomerase; Region: UxaC; pfam02614 469008009468 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 469008009469 D-galactonate transporter; Region: 2A0114; TIGR00893 469008009470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009471 putative substrate translocation pore; other site 469008009472 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 469008009473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008009474 DNA-binding site [nucleotide binding]; DNA binding site 469008009475 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008009476 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 469008009477 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 469008009478 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 469008009479 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 469008009480 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 469008009481 Predicted membrane protein [Function unknown]; Region: COG5393 469008009482 YqjK-like protein; Region: YqjK; pfam13997 469008009483 Predicted membrane protein [Function unknown]; Region: COG2259 469008009484 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 469008009485 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 469008009486 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 469008009487 putative dimer interface [polypeptide binding]; other site 469008009488 N-terminal domain interface [polypeptide binding]; other site 469008009489 putative substrate binding pocket (H-site) [chemical binding]; other site 469008009490 Predicted membrane protein [Function unknown]; Region: COG3152 469008009491 Predicted membrane protein [Function unknown]; Region: COG3152 469008009492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009493 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008009494 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 469008009495 dimerization interface [polypeptide binding]; other site 469008009496 Pirin-related protein [General function prediction only]; Region: COG1741 469008009497 Pirin; Region: Pirin; pfam02678 469008009498 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 469008009499 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008009500 serine transporter; Region: stp; TIGR00814 469008009501 L-serine dehydratase TdcG; Provisional; Region: PRK15040 469008009502 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469008009503 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469008009504 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 469008009505 homotrimer interaction site [polypeptide binding]; other site 469008009506 putative active site [active] 469008009507 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 469008009508 Pyruvate formate lyase 1; Region: PFL1; cd01678 469008009509 coenzyme A binding site [chemical binding]; other site 469008009510 active site 469008009511 catalytic residues [active] 469008009512 glycine loop; other site 469008009513 propionate/acetate kinase; Provisional; Region: PRK12379 469008009514 Acetokinase family; Region: Acetate_kinase; cl17229 469008009515 threonine/serine transporter TdcC; Provisional; Region: PRK13629 469008009516 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008009517 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 469008009518 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 469008009519 tetramer interface [polypeptide binding]; other site 469008009520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008009521 catalytic residue [active] 469008009522 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 469008009523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009524 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 469008009525 putative substrate binding pocket [chemical binding]; other site 469008009526 putative dimerization interface [polypeptide binding]; other site 469008009527 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 469008009529 glycerate kinase I; Provisional; Region: PRK10342 469008009530 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 469008009531 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008009532 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 469008009533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009534 D-galactonate transporter; Region: 2A0114; TIGR00893 469008009535 putative substrate translocation pore; other site 469008009536 galactarate dehydratase; Region: galactar-dH20; TIGR03248 469008009537 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 469008009538 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 469008009539 putative regulator PrlF; Provisional; Region: PRK09974 469008009540 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 469008009542 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 469008009543 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008009544 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008009545 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 469008009546 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 469008009547 active site 469008009548 phosphorylation site [posttranslational modification] 469008009549 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 469008009550 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 469008009551 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 469008009552 active pocket/dimerization site; other site 469008009553 active site 469008009554 phosphorylation site [posttranslational modification] 469008009555 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 469008009556 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 469008009557 active site 469008009558 dimer interface [polypeptide binding]; other site 469008009559 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 469008009560 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 469008009561 dimer interface [polypeptide binding]; other site 469008009562 active site 469008009563 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 469008009564 putative active site [active] 469008009565 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 469008009566 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 469008009567 active site 469008009568 intersubunit interface [polypeptide binding]; other site 469008009569 zinc binding site [ion binding]; other site 469008009570 Na+ binding site [ion binding]; other site 469008009571 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 469008009572 active site 469008009573 phosphorylation site [posttranslational modification] 469008009574 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 469008009575 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 469008009576 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008009577 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 469008009578 active site 469008009579 trimer interface [polypeptide binding]; other site 469008009580 allosteric site; other site 469008009581 active site lid [active] 469008009582 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008009583 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 469008009584 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008009585 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008009586 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 469008009587 PapC N-terminal domain; Region: PapC_N; pfam13954 469008009588 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008009589 PapC C-terminal domain; Region: PapC_C; pfam13953 469008009590 Fimbrial protein; Region: Fimbrial; pfam00419 469008009591 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 469008009592 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 469008009593 putative SAM binding site [chemical binding]; other site 469008009594 putative homodimer interface [polypeptide binding]; other site 469008009595 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 469008009596 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 469008009597 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 469008009598 putative ligand binding site [chemical binding]; other site 469008009599 TIGR00252 family protein; Region: TIGR00252 469008009600 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 469008009601 dimer interface [polypeptide binding]; other site 469008009602 active site 469008009603 outer membrane lipoprotein; Provisional; Region: PRK11023 469008009604 BON domain; Region: BON; pfam04972 469008009605 BON domain; Region: BON; pfam04972 469008009606 Predicted permease; Region: DUF318; pfam03773 469008009607 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 469008009608 NADH(P)-binding; Region: NAD_binding_10; pfam13460 469008009609 NAD binding site [chemical binding]; other site 469008009610 active site 469008009611 intracellular protease, PfpI family; Region: PfpI; TIGR01382 469008009612 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 469008009613 proposed catalytic triad [active] 469008009614 conserved cys residue [active] 469008009615 hypothetical protein; Provisional; Region: PRK03467 469008009616 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 469008009617 GIY-YIG motif/motif A; other site 469008009618 putative active site [active] 469008009619 putative metal binding site [ion binding]; other site 469008009620 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 469008009621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008009622 Coenzyme A binding pocket [chemical binding]; other site 469008009623 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 469008009624 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008009625 Peptidase family U32; Region: Peptidase_U32; pfam01136 469008009626 putative protease; Provisional; Region: PRK15447 469008009627 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469008009628 hypothetical protein; Provisional; Region: PRK10508 469008009629 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 469008009630 tryptophan permease; Provisional; Region: PRK10483 469008009631 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008009632 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 469008009633 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 469008009634 ATP binding site [chemical binding]; other site 469008009635 Mg++ binding site [ion binding]; other site 469008009636 motif III; other site 469008009637 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 469008009638 nucleotide binding region [chemical binding]; other site 469008009639 ATP-binding site [chemical binding]; other site 469008009640 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 469008009641 putative RNA binding site [nucleotide binding]; other site 469008009642 lipoprotein NlpI; Provisional; Region: PRK11189 469008009643 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 469008009644 binding surface 469008009645 TPR motif; other site 469008009646 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 469008009647 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 469008009648 RNase E interface [polypeptide binding]; other site 469008009649 trimer interface [polypeptide binding]; other site 469008009650 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 469008009651 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 469008009652 RNase E interface [polypeptide binding]; other site 469008009653 trimer interface [polypeptide binding]; other site 469008009654 active site 469008009655 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 469008009656 putative nucleic acid binding region [nucleotide binding]; other site 469008009657 G-X-X-G motif; other site 469008009658 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 469008009659 RNA binding site [nucleotide binding]; other site 469008009660 domain interface; other site 469008009661 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 469008009662 16S/18S rRNA binding site [nucleotide binding]; other site 469008009663 S13e-L30e interaction site [polypeptide binding]; other site 469008009664 25S rRNA binding site [nucleotide binding]; other site 469008009665 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 469008009666 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 469008009667 RNA binding site [nucleotide binding]; other site 469008009668 active site 469008009669 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 469008009670 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 469008009671 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469008009672 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 469008009673 translation initiation factor IF-2; Region: IF-2; TIGR00487 469008009674 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469008009675 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 469008009676 G1 box; other site 469008009677 putative GEF interaction site [polypeptide binding]; other site 469008009678 GTP/Mg2+ binding site [chemical binding]; other site 469008009679 Switch I region; other site 469008009680 G2 box; other site 469008009681 G3 box; other site 469008009682 Switch II region; other site 469008009683 G4 box; other site 469008009684 G5 box; other site 469008009685 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 469008009686 Translation-initiation factor 2; Region: IF-2; pfam11987 469008009687 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 469008009688 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 469008009689 NusA N-terminal domain; Region: NusA_N; pfam08529 469008009690 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 469008009691 RNA binding site [nucleotide binding]; other site 469008009692 homodimer interface [polypeptide binding]; other site 469008009693 NusA-like KH domain; Region: KH_5; pfam13184 469008009694 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 469008009695 G-X-X-G motif; other site 469008009696 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 469008009697 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 469008009698 ribosome maturation protein RimP; Reviewed; Region: PRK00092 469008009699 Sm and related proteins; Region: Sm_like; cl00259 469008009700 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 469008009701 putative oligomer interface [polypeptide binding]; other site 469008009702 putative RNA binding site [nucleotide binding]; other site 469008009703 argininosuccinate synthase; Validated; Region: PRK05370 469008009704 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 469008009705 Sulfatase; Region: Sulfatase; pfam00884 469008009706 Preprotein translocase SecG subunit; Region: SecG; pfam03840 469008009707 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 469008009708 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 469008009709 active site 469008009710 substrate binding site [chemical binding]; other site 469008009711 metal binding site [ion binding]; metal-binding site 469008009712 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 469008009713 dihydropteroate synthase; Region: DHPS; TIGR01496 469008009714 substrate binding pocket [chemical binding]; other site 469008009715 dimer interface [polypeptide binding]; other site 469008009716 inhibitor binding site; inhibition site 469008009717 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 469008009718 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 469008009719 Walker A motif; other site 469008009720 ATP binding site [chemical binding]; other site 469008009721 Walker B motif; other site 469008009722 arginine finger; other site 469008009723 Peptidase family M41; Region: Peptidase_M41; pfam01434 469008009724 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 469008009725 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 469008009726 S-adenosylmethionine binding site [chemical binding]; other site 469008009727 RNA-binding protein YhbY; Provisional; Region: PRK10343 469008009728 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 469008009729 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 469008009730 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008009731 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 469008009732 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 469008009733 GTPase CgtA; Reviewed; Region: obgE; PRK12298 469008009734 GTP1/OBG; Region: GTP1_OBG; pfam01018 469008009735 Obg GTPase; Region: Obg; cd01898 469008009736 G1 box; other site 469008009737 GTP/Mg2+ binding site [chemical binding]; other site 469008009738 Switch I region; other site 469008009739 G2 box; other site 469008009740 G3 box; other site 469008009741 Switch II region; other site 469008009742 G4 box; other site 469008009743 G5 box; other site 469008009744 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469008009745 EamA-like transporter family; Region: EamA; pfam00892 469008009746 EamA-like transporter family; Region: EamA; pfam00892 469008009747 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 469008009748 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 469008009749 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 469008009750 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469008009751 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469008009752 substrate binding pocket [chemical binding]; other site 469008009753 chain length determination region; other site 469008009754 substrate-Mg2+ binding site; other site 469008009755 catalytic residues [active] 469008009756 aspartate-rich region 1; other site 469008009757 active site lid residues [active] 469008009758 aspartate-rich region 2; other site 469008009759 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 469008009760 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 469008009761 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 469008009762 hinge; other site 469008009763 active site 469008009764 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 469008009765 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 469008009766 anti sigma factor interaction site; other site 469008009767 regulatory phosphorylation site [posttranslational modification]; other site 469008009768 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 469008009769 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 469008009770 mce related protein; Region: MCE; pfam02470 469008009771 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 469008009772 conserved hypothetical integral membrane protein; Region: TIGR00056 469008009773 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 469008009774 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 469008009775 Walker A/P-loop; other site 469008009776 ATP binding site [chemical binding]; other site 469008009777 Q-loop/lid; other site 469008009778 ABC transporter signature motif; other site 469008009779 Walker B; other site 469008009780 D-loop; other site 469008009781 H-loop/switch region; other site 469008009782 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 469008009783 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008009784 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 469008009785 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 469008009786 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 469008009787 putative active site [active] 469008009788 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 469008009789 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 469008009790 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 469008009791 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 469008009792 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 469008009793 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 469008009794 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 469008009795 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 469008009796 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 469008009797 Walker A/P-loop; other site 469008009798 ATP binding site [chemical binding]; other site 469008009799 Q-loop/lid; other site 469008009800 ABC transporter signature motif; other site 469008009801 Walker B; other site 469008009802 D-loop; other site 469008009803 H-loop/switch region; other site 469008009804 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 469008009805 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 469008009806 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 469008009807 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 469008009808 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 469008009809 30S subunit binding site; other site 469008009810 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 469008009811 active site 469008009812 phosphorylation site [posttranslational modification] 469008009813 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 469008009814 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 469008009815 dimerization domain swap beta strand [polypeptide binding]; other site 469008009816 regulatory protein interface [polypeptide binding]; other site 469008009817 active site 469008009818 regulatory phosphorylation site [posttranslational modification]; other site 469008009819 hypothetical protein; Provisional; Region: PRK10345 469008009820 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 469008009821 Transglycosylase; Region: Transgly; cl17702 469008009822 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 469008009823 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 469008009824 conserved cys residue [active] 469008009825 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 469008009826 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 469008009827 putative active site [active] 469008009828 heme pocket [chemical binding]; other site 469008009829 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 469008009830 dimer interface [polypeptide binding]; other site 469008009831 phosphorylation site [posttranslational modification] 469008009832 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 469008009833 ATP binding site [chemical binding]; other site 469008009834 Mg2+ binding site [ion binding]; other site 469008009835 G-X-G motif; other site 469008009836 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 469008009837 active site 469008009838 phosphorylation site [posttranslational modification] 469008009839 intermolecular recognition site; other site 469008009840 dimerization interface [polypeptide binding]; other site 469008009841 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 469008009842 putative binding surface; other site 469008009843 active site 469008009844 radical SAM protein, TIGR01212 family; Region: TIGR01212 469008009845 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 469008009846 FeS/SAM binding site; other site 469008009847 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 469008009848 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 469008009849 active site 469008009850 dimer interface [polypeptide binding]; other site 469008009851 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 469008009852 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 469008009853 active site 469008009854 FMN binding site [chemical binding]; other site 469008009855 substrate binding site [chemical binding]; other site 469008009856 3Fe-4S cluster binding site [ion binding]; other site 469008009857 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 469008009858 domain interface; other site 469008009859 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 469008009860 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008009861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008009862 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 469008009863 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 469008009864 N-acetylmannosamine kinase; Provisional; Region: PRK05082 469008009865 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008009866 nucleotide binding site [chemical binding]; other site 469008009867 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469008009868 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 469008009869 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 469008009870 putative active site cavity [active] 469008009871 putative sialic acid transporter; Provisional; Region: PRK03893 469008009872 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008009873 putative substrate translocation pore; other site 469008009874 N-acetylneuraminate lyase; Region: nanA; TIGR00683 469008009875 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 469008009876 inhibitor site; inhibition site 469008009877 active site 469008009878 dimer interface [polypeptide binding]; other site 469008009879 catalytic residue [active] 469008009880 transcriptional regulator NanR; Provisional; Region: PRK03837 469008009881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008009882 DNA-binding site [nucleotide binding]; DNA binding site 469008009883 FCD domain; Region: FCD; pfam07729 469008009884 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 469008009885 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469008009886 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 469008009887 stringent starvation protein A; Provisional; Region: sspA; PRK09481 469008009888 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 469008009889 C-terminal domain interface [polypeptide binding]; other site 469008009890 putative GSH binding site (G-site) [chemical binding]; other site 469008009891 dimer interface [polypeptide binding]; other site 469008009892 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 469008009893 dimer interface [polypeptide binding]; other site 469008009894 N-terminal domain interface [polypeptide binding]; other site 469008009895 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 469008009896 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 469008009897 23S rRNA interface [nucleotide binding]; other site 469008009898 L3 interface [polypeptide binding]; other site 469008009899 Predicted ATPase [General function prediction only]; Region: COG1485 469008009900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 469008009901 hypothetical protein; Provisional; Region: PRK11677 469008009902 serine endoprotease; Provisional; Region: PRK10139 469008009903 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008009904 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 469008009905 protein binding site [polypeptide binding]; other site 469008009906 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 469008009907 serine endoprotease; Provisional; Region: PRK10898 469008009908 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 469008009909 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 469008009910 malate dehydrogenase; Provisional; Region: PRK05086 469008009911 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 469008009912 NAD binding site [chemical binding]; other site 469008009913 dimerization interface [polypeptide binding]; other site 469008009914 Substrate binding site [chemical binding]; other site 469008009915 arginine repressor; Provisional; Region: PRK05066 469008009916 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 469008009917 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 469008009918 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008009919 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 469008009920 RNAase interaction site [polypeptide binding]; other site 469008009921 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 469008009922 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008009923 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 469008009924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008009925 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008009926 efflux system membrane protein; Provisional; Region: PRK11594 469008009927 transcriptional regulator; Provisional; Region: PRK10632 469008009928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008009929 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 469008009930 putative effector binding pocket; other site 469008009931 dimerization interface [polypeptide binding]; other site 469008009932 protease TldD; Provisional; Region: tldD; PRK10735 469008009933 hypothetical protein; Provisional; Region: PRK10899 469008009934 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008009935 ribonuclease G; Provisional; Region: PRK11712 469008009936 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 469008009937 homodimer interface [polypeptide binding]; other site 469008009938 oligonucleotide binding site [chemical binding]; other site 469008009939 Maf-like protein; Region: Maf; pfam02545 469008009940 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 469008009941 active site 469008009942 dimer interface [polypeptide binding]; other site 469008009943 rod shape-determining protein MreD; Provisional; Region: PRK11060 469008009944 rod shape-determining protein MreC; Region: mreC; TIGR00219 469008009945 rod shape-determining protein MreC; Region: MreC; pfam04085 469008009946 rod shape-determining protein MreB; Provisional; Region: PRK13927 469008009947 MreB and similar proteins; Region: MreB_like; cd10225 469008009948 nucleotide binding site [chemical binding]; other site 469008009949 Mg binding site [ion binding]; other site 469008009950 putative protofilament interaction site [polypeptide binding]; other site 469008009951 RodZ interaction site [polypeptide binding]; other site 469008009952 regulatory protein CsrD; Provisional; Region: PRK11059 469008009953 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008009954 metal binding site [ion binding]; metal-binding site 469008009955 active site 469008009956 I-site; other site 469008009957 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 469008009958 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 469008009959 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 469008009960 NADP binding site [chemical binding]; other site 469008009961 dimer interface [polypeptide binding]; other site 469008009962 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 469008009963 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 469008009964 carboxyltransferase (CT) interaction site; other site 469008009965 biotinylation site [posttranslational modification]; other site 469008009966 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 469008009967 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469008009968 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469008009969 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 469008009970 hypothetical protein; Provisional; Region: PRK10633 469008009971 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 469008009972 Na binding site [ion binding]; other site 469008009973 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 469008009974 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 469008009975 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 469008009976 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 469008009977 FMN binding site [chemical binding]; other site 469008009978 active site 469008009979 catalytic residues [active] 469008009980 substrate binding site [chemical binding]; other site 469008009981 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 469008009982 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 469008009983 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 469008009984 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 469008009985 DNA methylase; Region: N6_N4_Mtase; pfam01555 469008009986 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 469008009987 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 469008009988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008009989 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 469008009990 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 469008009991 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008009992 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008009993 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 469008009994 Protein export membrane protein; Region: SecD_SecF; cl14618 469008009995 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469008009996 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 469008009997 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 469008009998 substrate binding pocket [chemical binding]; other site 469008009999 membrane-bound complex binding site; other site 469008010000 hinge residues; other site 469008010001 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 469008010002 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 469008010003 conserved gate region; other site 469008010004 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 469008010005 dimer interface [polypeptide binding]; other site 469008010006 conserved gate region; other site 469008010007 putative PBP binding loops; other site 469008010008 ABC-ATPase subunit interface; other site 469008010009 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469008010010 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 469008010011 dimer interface [polypeptide binding]; other site 469008010012 conserved gate region; other site 469008010013 putative PBP binding loops; other site 469008010014 ABC-ATPase subunit interface; other site 469008010015 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 469008010016 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469008010017 Walker A/P-loop; other site 469008010018 ATP binding site [chemical binding]; other site 469008010019 Q-loop/lid; other site 469008010020 ABC transporter signature motif; other site 469008010021 Walker B; other site 469008010022 D-loop; other site 469008010023 H-loop/switch region; other site 469008010024 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 469008010025 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 469008010026 trimer interface [polypeptide binding]; other site 469008010027 putative metal binding site [ion binding]; other site 469008010028 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 469008010029 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 469008010030 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469008010031 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469008010032 shikimate binding site; other site 469008010033 NAD(P) binding site [chemical binding]; other site 469008010034 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 469008010035 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008010036 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 469008010037 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008010038 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469008010039 hypothetical protein; Validated; Region: PRK03430 469008010040 hypothetical protein; Provisional; Region: PRK10736 469008010041 DNA protecting protein DprA; Region: dprA; TIGR00732 469008010042 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 469008010043 active site 469008010044 catalytic residues [active] 469008010045 metal binding site [ion binding]; metal-binding site 469008010046 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 469008010047 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 469008010048 putative active site [active] 469008010049 substrate binding site [chemical binding]; other site 469008010050 putative cosubstrate binding site; other site 469008010051 catalytic site [active] 469008010052 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 469008010053 substrate binding site [chemical binding]; other site 469008010054 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 469008010055 putative RNA binding site [nucleotide binding]; other site 469008010056 16S rRNA methyltransferase B; Provisional; Region: PRK10901 469008010057 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 469008010058 S-adenosylmethionine binding site [chemical binding]; other site 469008010059 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 469008010060 TrkA-N domain; Region: TrkA_N; pfam02254 469008010061 TrkA-C domain; Region: TrkA_C; pfam02080 469008010062 TrkA-N domain; Region: TrkA_N; pfam02254 469008010063 TrkA-C domain; Region: TrkA_C; pfam02080 469008010064 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 469008010065 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 469008010066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 469008010067 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 469008010068 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 469008010069 DNA binding residues [nucleotide binding] 469008010070 dimer interface [polypeptide binding]; other site 469008010071 metal binding site [ion binding]; metal-binding site 469008010072 hypothetical protein; Provisional; Region: PRK10203 469008010073 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 469008010074 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 469008010075 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 469008010076 alphaNTD homodimer interface [polypeptide binding]; other site 469008010077 alphaNTD - beta interaction site [polypeptide binding]; other site 469008010078 alphaNTD - beta' interaction site [polypeptide binding]; other site 469008010079 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 469008010080 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 469008010081 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 469008010082 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 469008010083 RNA binding surface [nucleotide binding]; other site 469008010084 30S ribosomal protein S11; Validated; Region: PRK05309 469008010085 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 469008010086 30S ribosomal protein S13; Region: bact_S13; TIGR03631 469008010087 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 469008010088 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 469008010089 SecY translocase; Region: SecY; pfam00344 469008010090 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 469008010091 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 469008010092 23S rRNA binding site [nucleotide binding]; other site 469008010093 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 469008010094 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 469008010095 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 469008010096 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 469008010097 23S rRNA interface [nucleotide binding]; other site 469008010098 5S rRNA interface [nucleotide binding]; other site 469008010099 L27 interface [polypeptide binding]; other site 469008010100 L5 interface [polypeptide binding]; other site 469008010101 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 469008010102 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469008010103 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469008010104 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 469008010105 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 469008010106 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 469008010107 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 469008010108 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 469008010109 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 469008010110 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 469008010111 RNA binding site [nucleotide binding]; other site 469008010112 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 469008010113 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 469008010114 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 469008010115 23S rRNA interface [nucleotide binding]; other site 469008010116 putative translocon interaction site; other site 469008010117 signal recognition particle (SRP54) interaction site; other site 469008010118 L23 interface [polypeptide binding]; other site 469008010119 trigger factor interaction site; other site 469008010120 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 469008010121 23S rRNA interface [nucleotide binding]; other site 469008010122 5S rRNA interface [nucleotide binding]; other site 469008010123 putative antibiotic binding site [chemical binding]; other site 469008010124 L25 interface [polypeptide binding]; other site 469008010125 L27 interface [polypeptide binding]; other site 469008010126 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 469008010127 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 469008010128 G-X-X-G motif; other site 469008010129 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 469008010130 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 469008010131 protein-rRNA interface [nucleotide binding]; other site 469008010132 putative translocon binding site; other site 469008010133 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 469008010134 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 469008010135 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 469008010136 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 469008010137 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 469008010138 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 469008010139 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 469008010140 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 469008010141 protein secretion protein GspB; Provisional; Region: PRK09697 469008010142 AAA domain; Region: AAA_22; pfam13401 469008010143 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469008010144 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 469008010145 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 469008010146 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008010147 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008010148 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 469008010149 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 469008010150 Walker A motif; other site 469008010151 ATP binding site [chemical binding]; other site 469008010152 Walker B motif; other site 469008010153 type II secretion system protein F; Region: GspF; TIGR02120 469008010154 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008010155 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469008010156 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008010157 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 469008010158 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 469008010159 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 469008010160 type II secretion system protein I; Region: gspI; TIGR01707 469008010161 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 469008010162 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 469008010163 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 469008010164 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 469008010165 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 469008010166 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 469008010167 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 469008010168 GspL periplasmic domain; Region: GspL_C; pfam12693 469008010169 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 469008010170 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 469008010171 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469008010172 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 469008010173 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 469008010174 heme binding site [chemical binding]; other site 469008010175 ferroxidase pore; other site 469008010176 ferroxidase diiron center [ion binding]; other site 469008010177 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 469008010178 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 469008010179 aromatic chitin/cellulose binding site residues [chemical binding]; other site 469008010180 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 469008010181 aromatic chitin/cellulose binding site residues [chemical binding]; other site 469008010182 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 469008010183 active site 469008010184 elongation factor Tu; Reviewed; Region: PRK00049 469008010185 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469008010186 G1 box; other site 469008010187 GEF interaction site [polypeptide binding]; other site 469008010188 GTP/Mg2+ binding site [chemical binding]; other site 469008010189 Switch I region; other site 469008010190 G2 box; other site 469008010191 G3 box; other site 469008010192 Switch II region; other site 469008010193 G4 box; other site 469008010194 G5 box; other site 469008010195 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 469008010196 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 469008010197 Antibiotic Binding Site [chemical binding]; other site 469008010198 elongation factor G; Reviewed; Region: PRK00007 469008010199 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 469008010200 G1 box; other site 469008010201 putative GEF interaction site [polypeptide binding]; other site 469008010202 GTP/Mg2+ binding site [chemical binding]; other site 469008010203 Switch I region; other site 469008010204 G2 box; other site 469008010205 G3 box; other site 469008010206 Switch II region; other site 469008010207 G4 box; other site 469008010208 G5 box; other site 469008010209 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 469008010210 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 469008010211 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 469008010212 30S ribosomal protein S7; Validated; Region: PRK05302 469008010213 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 469008010214 S17 interaction site [polypeptide binding]; other site 469008010215 S8 interaction site; other site 469008010216 16S rRNA interaction site [nucleotide binding]; other site 469008010217 streptomycin interaction site [chemical binding]; other site 469008010218 23S rRNA interaction site [nucleotide binding]; other site 469008010219 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 469008010220 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 469008010221 sulfur relay protein TusC; Validated; Region: PRK00211 469008010222 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 469008010223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 469008010224 YheO-like PAS domain; Region: PAS_6; pfam08348 469008010225 HTH domain; Region: HTH_22; pfam13309 469008010226 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 469008010227 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 469008010228 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008010229 phi X174 lysis protein; Provisional; Region: PRK02793 469008010230 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 469008010231 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008010232 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 469008010233 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 469008010234 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 469008010235 TrkA-N domain; Region: TrkA_N; pfam02254 469008010236 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 469008010237 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 469008010238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008010239 Walker A/P-loop; other site 469008010240 ATP binding site [chemical binding]; other site 469008010241 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008010242 ABC transporter signature motif; other site 469008010243 Walker B; other site 469008010244 D-loop; other site 469008010245 ABC transporter; Region: ABC_tran_2; pfam12848 469008010246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008010247 putative hydrolase; Provisional; Region: PRK10985 469008010248 hypothetical protein; Provisional; Region: PRK04966 469008010249 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 469008010250 active site 469008010251 hypothetical protein; Provisional; Region: PRK10738 469008010252 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 469008010253 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 469008010254 ligand binding site [chemical binding]; other site 469008010255 flexible hinge region; other site 469008010256 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 469008010257 putative switch regulator; other site 469008010258 non-specific DNA interactions [nucleotide binding]; other site 469008010259 DNA binding site [nucleotide binding] 469008010260 sequence specific DNA binding site [nucleotide binding]; other site 469008010261 putative cAMP binding site [chemical binding]; other site 469008010262 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 469008010263 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 469008010264 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008010265 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 469008010266 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 469008010267 inhibitor-cofactor binding pocket; inhibition site 469008010268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010269 catalytic residue [active] 469008010270 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 469008010271 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469008010272 glutamine binding [chemical binding]; other site 469008010273 catalytic triad [active] 469008010274 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 469008010275 cell filamentation protein Fic; Provisional; Region: PRK10347 469008010276 hypothetical protein; Provisional; Region: PRK10204 469008010277 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 469008010278 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 469008010279 substrate binding site [chemical binding]; other site 469008010280 putative transporter; Provisional; Region: PRK03699 469008010281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010282 putative substrate translocation pore; other site 469008010283 nitrite reductase subunit NirD; Provisional; Region: PRK14989 469008010284 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008010285 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008010286 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469008010287 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469008010288 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 469008010289 nitrite transporter NirC; Provisional; Region: PRK11562 469008010290 siroheme synthase; Provisional; Region: cysG; PRK10637 469008010291 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 469008010292 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 469008010293 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 469008010294 active site 469008010295 SAM binding site [chemical binding]; other site 469008010296 homodimer interface [polypeptide binding]; other site 469008010297 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 469008010298 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 469008010299 hypothetical protein; Provisional; Region: PHA02764 469008010300 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 469008010301 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 469008010302 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 469008010303 dimer interface [polypeptide binding]; other site 469008010304 active site 469008010305 fructoselysine 3-epimerase; Provisional; Region: PRK09856 469008010306 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 469008010307 AP (apurinic/apyrimidinic) site pocket; other site 469008010308 DNA interaction; other site 469008010309 Metal-binding active site; metal-binding site 469008010310 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 469008010311 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008010312 substrate binding site [chemical binding]; other site 469008010313 ATP binding site [chemical binding]; other site 469008010314 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 469008010315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008010316 DNA-binding site [nucleotide binding]; DNA binding site 469008010317 UTRA domain; Region: UTRA; pfam07702 469008010319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008010320 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008010321 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008010322 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008010323 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008010324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008010325 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008010326 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008010328 Protein of unknown function; Region: YhfT; pfam10797 469008010329 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 469008010330 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469008010331 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 469008010332 active site 469008010333 substrate binding pocket [chemical binding]; other site 469008010334 homodimer interaction site [polypeptide binding]; other site 469008010335 putative mutase; Provisional; Region: PRK12383 469008010336 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 469008010337 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 469008010338 dimer interface [polypeptide binding]; other site 469008010339 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 469008010340 active site 469008010341 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008010342 substrate binding site [chemical binding]; other site 469008010343 catalytic residue [active] 469008010344 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 469008010345 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 469008010346 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 469008010347 active site 469008010348 HIGH motif; other site 469008010349 dimer interface [polypeptide binding]; other site 469008010350 KMSKS motif; other site 469008010351 phosphoglycolate phosphatase; Provisional; Region: PRK13222 469008010352 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 469008010353 motif II; other site 469008010354 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 469008010355 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 469008010356 substrate binding site [chemical binding]; other site 469008010357 hexamer interface [polypeptide binding]; other site 469008010358 metal binding site [ion binding]; metal-binding site 469008010359 DNA adenine methylase; Provisional; Region: PRK10904 469008010360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 469008010361 cell division protein DamX; Validated; Region: PRK10905 469008010362 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 469008010363 active site 469008010364 dimer interface [polypeptide binding]; other site 469008010365 metal binding site [ion binding]; metal-binding site 469008010366 shikimate kinase; Reviewed; Region: aroK; PRK00131 469008010367 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 469008010368 ADP binding site [chemical binding]; other site 469008010369 magnesium binding site [ion binding]; other site 469008010370 putative shikimate binding site; other site 469008010371 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 469008010372 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469008010373 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469008010374 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 469008010375 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 469008010376 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 469008010377 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 469008010378 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 469008010379 Transglycosylase; Region: Transgly; pfam00912 469008010380 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469008010381 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 469008010382 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 469008010383 ADP-ribose binding site [chemical binding]; other site 469008010384 dimer interface [polypeptide binding]; other site 469008010385 active site 469008010386 nudix motif; other site 469008010387 metal binding site [ion binding]; metal-binding site 469008010388 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 469008010389 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 469008010390 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 469008010391 motif II; other site 469008010392 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 469008010393 RNA binding surface [nucleotide binding]; other site 469008010394 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 469008010395 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 469008010396 dimerization interface [polypeptide binding]; other site 469008010397 domain crossover interface; other site 469008010398 redox-dependent activation switch; other site 469008010399 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 469008010400 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 469008010401 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 469008010402 active site 469008010403 substrate-binding site [chemical binding]; other site 469008010404 metal-binding site [ion binding] 469008010405 ATP binding site [chemical binding]; other site 469008010406 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 469008010407 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 469008010408 dimerization interface [polypeptide binding]; other site 469008010409 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 469008010410 dimer interface [polypeptide binding]; other site 469008010411 phosphorylation site [posttranslational modification] 469008010412 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 469008010413 ATP binding site [chemical binding]; other site 469008010414 G-X-G motif; other site 469008010415 osmolarity response regulator; Provisional; Region: ompR; PRK09468 469008010416 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 469008010417 active site 469008010418 phosphorylation site [posttranslational modification] 469008010419 intermolecular recognition site; other site 469008010420 dimerization interface [polypeptide binding]; other site 469008010421 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 469008010422 DNA binding site [nucleotide binding] 469008010423 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 469008010424 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 469008010425 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 469008010426 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 469008010427 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 469008010428 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 469008010429 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 469008010430 RNA binding site [nucleotide binding]; other site 469008010431 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 469008010432 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 469008010433 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 469008010434 G1 box; other site 469008010435 GTP/Mg2+ binding site [chemical binding]; other site 469008010436 Switch I region; other site 469008010437 G2 box; other site 469008010438 G3 box; other site 469008010439 Switch II region; other site 469008010440 G4 box; other site 469008010441 G5 box; other site 469008010442 Nucleoside recognition; Region: Gate; pfam07670 469008010443 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 469008010444 Nucleoside recognition; Region: Gate; pfam07670 469008010445 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 469008010446 putative transposase; Provisional; Region: PRK09857 469008010447 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008010448 carboxylesterase BioH; Provisional; Region: PRK10349 469008010449 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 469008010450 DNA utilization protein GntX; Provisional; Region: PRK11595 469008010451 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008010452 active site 469008010453 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 469008010454 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 469008010455 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 469008010456 high-affinity gluconate transporter; Provisional; Region: PRK14984 469008010457 gluconate transporter; Region: gntP; TIGR00791 469008010458 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 469008010459 4-alpha-glucanotransferase; Region: malQ; TIGR00217 469008010460 maltodextrin phosphorylase; Provisional; Region: PRK14985 469008010461 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 469008010462 homodimer interface [polypeptide binding]; other site 469008010463 active site pocket [active] 469008010464 transcriptional regulator MalT; Provisional; Region: PRK04841 469008010465 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 469008010466 DNA binding residues [nucleotide binding] 469008010467 dimerization interface [polypeptide binding]; other site 469008010468 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 469008010469 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 469008010470 putative active site [active] 469008010471 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 469008010472 hypothetical protein; Reviewed; Region: PRK09588 469008010473 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 469008010474 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 469008010475 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 469008010476 Walker A motif; other site 469008010477 ATP binding site [chemical binding]; other site 469008010478 Walker B motif; other site 469008010479 arginine finger; other site 469008010480 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 469008010481 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008010482 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008010483 intramembrane serine protease GlpG; Provisional; Region: PRK10907 469008010484 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 469008010485 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 469008010486 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 469008010487 active site residue [active] 469008010488 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 469008010489 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 469008010490 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 469008010491 glycogen phosphorylase; Provisional; Region: PRK14986 469008010492 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 469008010493 homodimer interface [polypeptide binding]; other site 469008010494 active site pocket [active] 469008010495 glycogen synthase; Provisional; Region: glgA; PRK00654 469008010496 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 469008010497 ADP-binding pocket [chemical binding]; other site 469008010498 homodimer interface [polypeptide binding]; other site 469008010499 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 469008010500 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469008010501 ligand binding site; other site 469008010502 oligomer interface; other site 469008010503 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 469008010504 sulfate 1 binding site; other site 469008010505 glycogen debranching enzyme; Provisional; Region: PRK03705 469008010506 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 469008010507 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 469008010508 active site 469008010509 catalytic site [active] 469008010510 glycogen branching enzyme; Provisional; Region: PRK05402 469008010511 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 469008010512 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 469008010513 active site 469008010514 catalytic site [active] 469008010515 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 469008010516 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 469008010517 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008010518 putative antibiotic transporter; Provisional; Region: PRK10739 469008010519 low affinity gluconate transporter; Provisional; Region: PRK10472 469008010520 gluconate transporter; Region: gntP; TIGR00791 469008010521 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 469008010522 ATP-binding site [chemical binding]; other site 469008010523 Gluconate-6-phosphate binding site [chemical binding]; other site 469008010524 Shikimate kinase; Region: SKI; pfam01202 469008010525 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 469008010526 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008010527 DNA binding site [nucleotide binding] 469008010528 domain linker motif; other site 469008010529 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 469008010530 putative ligand binding site [chemical binding]; other site 469008010531 putative dimerization interface [polypeptide binding]; other site 469008010532 Pirin-related protein [General function prediction only]; Region: COG1741 469008010533 Pirin; Region: Pirin; pfam02678 469008010534 putative oxidoreductase; Provisional; Region: PRK10206 469008010535 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008010536 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008010537 putative acetyltransferase YhhY; Provisional; Region: PRK10140 469008010538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008010539 Coenzyme A binding pocket [chemical binding]; other site 469008010540 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 469008010541 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 469008010542 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 469008010543 hypothetical protein; Provisional; Region: PRK10350 469008010544 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 469008010545 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 469008010546 putative active site [active] 469008010547 catalytic site [active] 469008010548 putative metal binding site [ion binding]; other site 469008010549 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 469008010550 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008010551 Walker A/P-loop; other site 469008010552 ATP binding site [chemical binding]; other site 469008010553 Q-loop/lid; other site 469008010554 ABC transporter signature motif; other site 469008010555 Walker B; other site 469008010556 D-loop; other site 469008010557 H-loop/switch region; other site 469008010558 TOBE domain; Region: TOBE_2; pfam08402 469008010559 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008010560 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 469008010561 dimer interface [polypeptide binding]; other site 469008010562 conserved gate region; other site 469008010563 putative PBP binding loops; other site 469008010564 ABC-ATPase subunit interface; other site 469008010565 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 469008010566 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 469008010567 dimer interface [polypeptide binding]; other site 469008010568 conserved gate region; other site 469008010569 putative PBP binding loops; other site 469008010570 ABC-ATPase subunit interface; other site 469008010571 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 469008010572 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 469008010573 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 469008010574 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 469008010575 Walker A/P-loop; other site 469008010576 ATP binding site [chemical binding]; other site 469008010577 Q-loop/lid; other site 469008010578 ABC transporter signature motif; other site 469008010579 Walker B; other site 469008010580 D-loop; other site 469008010581 H-loop/switch region; other site 469008010582 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 469008010583 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 469008010584 Walker A/P-loop; other site 469008010585 ATP binding site [chemical binding]; other site 469008010586 Q-loop/lid; other site 469008010587 ABC transporter signature motif; other site 469008010588 Walker B; other site 469008010589 D-loop; other site 469008010590 H-loop/switch region; other site 469008010591 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 469008010592 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 469008010593 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 469008010594 TM-ABC transporter signature motif; other site 469008010595 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008010596 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 469008010597 TM-ABC transporter signature motif; other site 469008010598 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469008010599 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 469008010600 dimerization interface [polypeptide binding]; other site 469008010601 ligand binding site [chemical binding]; other site 469008010602 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 469008010603 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469008010604 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 469008010605 dimerization interface [polypeptide binding]; other site 469008010606 ligand binding site [chemical binding]; other site 469008010607 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 469008010608 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008010609 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 469008010610 DNA binding residues [nucleotide binding] 469008010611 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 469008010612 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 469008010613 cell division protein FtsE; Provisional; Region: PRK10908 469008010614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008010615 Walker A/P-loop; other site 469008010616 ATP binding site [chemical binding]; other site 469008010617 Q-loop/lid; other site 469008010618 ABC transporter signature motif; other site 469008010619 Walker B; other site 469008010620 D-loop; other site 469008010621 H-loop/switch region; other site 469008010622 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 469008010623 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 469008010624 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 469008010625 P loop; other site 469008010626 GTP binding site [chemical binding]; other site 469008010627 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 469008010628 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 469008010629 S-adenosylmethionine binding site [chemical binding]; other site 469008010630 hypothetical protein; Provisional; Region: PRK10910 469008010631 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 469008010632 Predicted membrane protein [Function unknown]; Region: COG3714 469008010633 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 469008010634 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 469008010635 metal-binding site [ion binding] 469008010636 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008010637 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 469008010638 CPxP motif; other site 469008010639 hypothetical protein; Provisional; Region: PRK11212 469008010640 hypothetical protein; Provisional; Region: PRK11615 469008010641 major facilitator superfamily transporter; Provisional; Region: PRK05122 469008010642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010643 putative substrate translocation pore; other site 469008010644 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 469008010645 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469008010646 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 469008010647 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 469008010648 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008010649 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 469008010650 substrate binding site [chemical binding]; other site 469008010651 nickel transporter permease NikB; Provisional; Region: PRK10352 469008010652 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 469008010653 dimer interface [polypeptide binding]; other site 469008010654 conserved gate region; other site 469008010655 putative PBP binding loops; other site 469008010656 ABC-ATPase subunit interface; other site 469008010657 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 469008010658 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 469008010659 dimer interface [polypeptide binding]; other site 469008010660 conserved gate region; other site 469008010661 putative PBP binding loops; other site 469008010662 ABC-ATPase subunit interface; other site 469008010663 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 469008010664 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010665 Walker A/P-loop; other site 469008010666 ATP binding site [chemical binding]; other site 469008010667 Q-loop/lid; other site 469008010668 ABC transporter signature motif; other site 469008010669 Walker B; other site 469008010670 D-loop; other site 469008010671 H-loop/switch region; other site 469008010672 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008010673 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 469008010674 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010675 Walker A/P-loop; other site 469008010676 ATP binding site [chemical binding]; other site 469008010677 Q-loop/lid; other site 469008010678 ABC transporter signature motif; other site 469008010679 Walker B; other site 469008010680 D-loop; other site 469008010681 H-loop/switch region; other site 469008010682 nickel responsive regulator; Provisional; Region: PRK02967 469008010683 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 469008010684 PAAR motif; Region: PAAR_motif; cl15808 469008010685 RHS Repeat; Region: RHS_repeat; pfam05593 469008010686 RHS Repeat; Region: RHS_repeat; pfam05593 469008010687 RHS Repeat; Region: RHS_repeat; pfam05593 469008010688 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008010689 RHS Repeat; Region: RHS_repeat; pfam05593 469008010690 RHS Repeat; Region: RHS_repeat; pfam05593 469008010691 RHS protein; Region: RHS; pfam03527 469008010692 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008010693 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 469008010695 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 469008010696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008010697 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008010698 Transposase [DNA replication, recombination, and repair]; Region: COG5433 469008010699 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008010700 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 469008010701 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008010702 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 469008010703 Walker A/P-loop; other site 469008010704 ATP binding site [chemical binding]; other site 469008010705 Q-loop/lid; other site 469008010706 ABC transporter signature motif; other site 469008010707 Walker B; other site 469008010708 D-loop; other site 469008010709 H-loop/switch region; other site 469008010710 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 469008010711 Walker A/P-loop; other site 469008010712 ATP binding site [chemical binding]; other site 469008010713 Q-loop/lid; other site 469008010714 ABC transporter signature motif; other site 469008010715 Walker B; other site 469008010716 D-loop; other site 469008010717 H-loop/switch region; other site 469008010718 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 469008010719 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 469008010720 HlyD family secretion protein; Region: HlyD; pfam00529 469008010721 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010722 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010723 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 469008010724 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 469008010725 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 469008010726 Predicted flavoproteins [General function prediction only]; Region: COG2081 469008010727 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008010728 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008010729 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 469008010730 universal stress protein UspB; Provisional; Region: PRK04960 469008010731 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 469008010732 Ligand Binding Site [chemical binding]; other site 469008010733 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 469008010734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010735 putative substrate translocation pore; other site 469008010736 POT family; Region: PTR2; pfam00854 469008010737 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 469008010738 S-adenosylmethionine binding site [chemical binding]; other site 469008010739 oligopeptidase A; Provisional; Region: PRK10911 469008010740 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 469008010741 active site 469008010742 Zn binding site [ion binding]; other site 469008010743 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 469008010744 glutathione reductase; Validated; Region: PRK06116 469008010745 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469008010746 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008010747 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008010748 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 469008010749 dimerization interface [polypeptide binding]; other site 469008010750 putative DNA binding site [nucleotide binding]; other site 469008010751 putative Zn2+ binding site [ion binding]; other site 469008010752 arsenical pump membrane protein; Provisional; Region: PRK15445 469008010753 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 469008010754 transmembrane helices; other site 469008010755 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 469008010756 ArsC family; Region: ArsC; pfam03960 469008010757 catalytic residues [active] 469008010758 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 469008010759 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008010760 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 469008010761 DNA binding residues [nucleotide binding] 469008010762 dimerization interface [polypeptide binding]; other site 469008010763 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 469008010764 MgtC family; Region: MgtC; pfam02308 469008010765 acid-resistance protein; Provisional; Region: hdeB; PRK11566 469008010766 acid-resistance protein; Provisional; Region: PRK10208 469008010767 acid-resistance membrane protein; Provisional; Region: PRK10209 469008010768 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 469008010769 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469008010770 pyruvate kinase; Provisional; Region: PRK05826 469008010771 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 469008010772 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008010773 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008010774 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 469008010775 Protein export membrane protein; Region: SecD_SecF; cl14618 469008010776 transcriptional regulator YdeO; Provisional; Region: PRK09940 469008010777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010778 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 469008010779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010780 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 469008010781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010782 catalytic residue [active] 469008010783 Haem-binding domain; Region: Haem_bd; pfam14376 469008010784 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 469008010785 trehalase; Provisional; Region: treF; PRK13270 469008010786 Trehalase; Region: Trehalase; pfam01204 469008010787 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008010788 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 469008010789 DNA binding residues [nucleotide binding] 469008010790 dimerization interface [polypeptide binding]; other site 469008010791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008010792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008010793 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 469008010794 putative effector binding pocket; other site 469008010795 putative dimerization interface [polypeptide binding]; other site 469008010796 inner membrane protein YhjD; Region: TIGR00766 469008010797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010798 metabolite-proton symporter; Region: 2A0106; TIGR00883 469008010799 putative substrate translocation pore; other site 469008010800 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 469008010801 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 469008010802 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 469008010803 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008010804 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 469008010805 substrate binding site [chemical binding]; other site 469008010806 ATP binding site [chemical binding]; other site 469008010807 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469008010808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469008010809 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 469008010810 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008010811 putative diguanylate cyclase; Provisional; Region: PRK13561 469008010812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 469008010813 metal binding site [ion binding]; metal-binding site 469008010814 active site 469008010815 I-site; other site 469008010816 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 469008010817 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 469008010818 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 469008010819 binding surface 469008010820 TPR motif; other site 469008010821 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 469008010822 binding surface 469008010823 TPR motif; other site 469008010824 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 469008010825 endo-1,4-D-glucanase; Provisional; Region: PRK11097 469008010826 cellulose synthase regulator protein; Provisional; Region: PRK11114 469008010827 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 469008010828 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 469008010829 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 469008010830 DXD motif; other site 469008010831 PilZ domain; Region: PilZ; pfam07238 469008010832 cell division protein; Provisional; Region: PRK10037 469008010833 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 469008010834 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 469008010835 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 469008010836 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 469008010837 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 469008010838 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 469008010839 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 469008010840 serine transporter; Region: stp; TIGR00814 469008010841 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 469008010842 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010843 Walker A/P-loop; other site 469008010844 ATP binding site [chemical binding]; other site 469008010845 Q-loop/lid; other site 469008010846 ABC transporter signature motif; other site 469008010847 Walker B; other site 469008010848 D-loop; other site 469008010849 H-loop/switch region; other site 469008010850 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008010851 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 469008010852 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008010853 Walker A/P-loop; other site 469008010854 ATP binding site [chemical binding]; other site 469008010855 Q-loop/lid; other site 469008010856 ABC transporter signature motif; other site 469008010857 Walker B; other site 469008010858 D-loop; other site 469008010859 H-loop/switch region; other site 469008010860 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469008010861 dipeptide transporter; Provisional; Region: PRK10913 469008010862 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 469008010863 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 469008010864 dimer interface [polypeptide binding]; other site 469008010865 conserved gate region; other site 469008010866 putative PBP binding loops; other site 469008010867 ABC-ATPase subunit interface; other site 469008010868 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469008010869 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 469008010870 dimer interface [polypeptide binding]; other site 469008010871 conserved gate region; other site 469008010872 putative PBP binding loops; other site 469008010873 ABC-ATPase subunit interface; other site 469008010874 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469008010875 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 469008010876 peptide binding site [polypeptide binding]; other site 469008010877 phosphoethanolamine transferase; Provisional; Region: PRK11560 469008010878 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008010879 Sulfatase; Region: Sulfatase; pfam00884 469008010880 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 469008010881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008010882 putative substrate translocation pore; other site 469008010883 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 469008010884 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 469008010885 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008010886 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008010887 Coenzyme A binding pocket [chemical binding]; other site 469008010888 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 469008010889 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 469008010890 molybdopterin cofactor binding site [chemical binding]; other site 469008010891 substrate binding site [chemical binding]; other site 469008010892 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 469008010893 molybdopterin cofactor binding site; other site 469008010894 putative outer membrane lipoprotein; Provisional; Region: PRK10510 469008010895 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469008010896 ligand binding site [chemical binding]; other site 469008010897 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 469008010898 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 469008010899 dimerization interface [polypeptide binding]; other site 469008010900 ligand binding site [chemical binding]; other site 469008010901 NADP binding site [chemical binding]; other site 469008010902 catalytic site [active] 469008010903 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 469008010904 Predicted transcriptional regulator [Transcription]; Region: COG2944 469008010905 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 469008010906 non-specific DNA binding site [nucleotide binding]; other site 469008010907 salt bridge; other site 469008010908 sequence-specific DNA binding site [nucleotide binding]; other site 469008010909 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 469008010910 DNA-binding site [nucleotide binding]; DNA binding site 469008010911 RNA-binding motif; other site 469008010912 small toxic polypeptide; Provisional; Region: PRK09759 469008010913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008010914 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010915 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010916 putative transposase OrfB; Reviewed; Region: PHA02517 469008010917 HTH-like domain; Region: HTH_21; pfam13276 469008010918 Integrase core domain; Region: rve; pfam00665 469008010919 Integrase core domain; Region: rve_2; pfam13333 469008010920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008010921 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010922 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008010923 putative transposase OrfB; Reviewed; Region: PHA02517 469008010924 HTH-like domain; Region: HTH_21; pfam13276 469008010925 Integrase core domain; Region: rve; pfam00665 469008010926 Integrase core domain; Region: rve_2; pfam13333 469008010927 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 469008010928 DALR anticodon binding domain; Region: DALR_1; pfam05746 469008010929 anticodon binding site; other site 469008010930 tRNA binding surface [nucleotide binding]; other site 469008010931 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 469008010932 dimer interface [polypeptide binding]; other site 469008010933 motif 1; other site 469008010934 active site 469008010935 motif 2; other site 469008010936 motif 3; other site 469008010937 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 469008010938 YsaB-like lipoprotein; Region: YsaB; pfam13983 469008010939 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 469008010940 Acyltransferase family; Region: Acyl_transf_3; pfam01757 469008010941 hypothetical protein; Provisional; Region: PRK11383 469008010942 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010943 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010944 hypothetical protein; Provisional; Region: PRK11403 469008010945 yiaA/B two helix domain; Region: YiaAB; pfam05360 469008010946 xylulokinase; Provisional; Region: PRK15027 469008010947 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 469008010948 N- and C-terminal domain interface [polypeptide binding]; other site 469008010949 active site 469008010950 MgATP binding site [chemical binding]; other site 469008010951 catalytic site [active] 469008010952 metal binding site [ion binding]; metal-binding site 469008010953 xylulose binding site [chemical binding]; other site 469008010954 homodimer interface [polypeptide binding]; other site 469008010955 xylose isomerase; Provisional; Region: PRK05474 469008010956 xylose isomerase; Region: xylose_isom_A; TIGR02630 469008010957 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 469008010958 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 469008010959 putative ligand binding site [chemical binding]; other site 469008010961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008010962 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 469008010963 TM-ABC transporter signature motif; other site 469008010964 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 469008010965 putative dimerization interface [polypeptide binding]; other site 469008010966 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008010967 putative ligand binding site [chemical binding]; other site 469008010968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010969 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008010970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008010971 hypothetical protein; Provisional; Region: PRK10356 469008010972 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 469008010973 alpha-amylase; Reviewed; Region: malS; PRK09505 469008010974 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 469008010975 active site 469008010976 catalytic site [active] 469008010977 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 469008010978 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 469008010979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008010980 homodimer interface [polypeptide binding]; other site 469008010981 catalytic residue [active] 469008010982 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 469008010983 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 469008010984 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008010985 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008010986 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008010987 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 469008010988 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 469008010989 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 469008010990 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 469008010991 DctM-like transporters; Region: DctM; pfam06808 469008010992 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469008010993 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 469008010994 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 469008010995 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 469008010996 putative N- and C-terminal domain interface [polypeptide binding]; other site 469008010997 putative active site [active] 469008010998 MgATP binding site [chemical binding]; other site 469008010999 catalytic site [active] 469008011000 metal binding site [ion binding]; metal-binding site 469008011001 putative xylulose binding site [chemical binding]; other site 469008011002 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 469008011003 active site 469008011004 dimer interface [polypeptide binding]; other site 469008011005 magnesium binding site [ion binding]; other site 469008011006 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 469008011007 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 469008011008 AP (apurinic/apyrimidinic) site pocket; other site 469008011009 DNA interaction; other site 469008011010 Metal-binding active site; metal-binding site 469008011011 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008011012 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 469008011013 intersubunit interface [polypeptide binding]; other site 469008011014 active site 469008011015 Zn2+ binding site [ion binding]; other site 469008011016 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008011017 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 469008011018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011019 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008011020 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469008011021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 469008011022 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 469008011023 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 469008011024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469008011025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011026 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 469008011027 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008011028 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008011029 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008011030 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 469008011031 FlxA-like protein; Region: FlxA; pfam14282 469008011032 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 469008011033 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469008011034 NAD(P) binding site [chemical binding]; other site 469008011035 catalytic residues [active] 469008011036 putative alcohol dehydrogenase; Provisional; Region: PRK09860 469008011037 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 469008011038 dimer interface [polypeptide binding]; other site 469008011039 active site 469008011040 metal binding site [ion binding]; metal-binding site 469008011041 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 469008011042 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 469008011043 G1 box; other site 469008011044 putative GEF interaction site [polypeptide binding]; other site 469008011045 GTP/Mg2+ binding site [chemical binding]; other site 469008011046 Switch I region; other site 469008011047 G2 box; other site 469008011048 G3 box; other site 469008011049 Switch II region; other site 469008011050 G4 box; other site 469008011051 G5 box; other site 469008011052 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 469008011053 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 469008011054 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 469008011055 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 469008011056 selenocysteine synthase; Provisional; Region: PRK04311 469008011057 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 469008011058 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 469008011059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008011060 catalytic residue [active] 469008011061 putative glutathione S-transferase; Provisional; Region: PRK10357 469008011062 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 469008011063 putative C-terminal domain interface [polypeptide binding]; other site 469008011064 putative GSH binding site (G-site) [chemical binding]; other site 469008011065 putative dimer interface [polypeptide binding]; other site 469008011066 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 469008011067 dimer interface [polypeptide binding]; other site 469008011068 N-terminal domain interface [polypeptide binding]; other site 469008011069 putative substrate binding pocket (H-site) [chemical binding]; other site 469008011070 PAAR motif; Region: PAAR_motif; cl15808 469008011071 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008011072 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008011073 putative lyase; Provisional; Region: PRK09687 469008011074 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 469008011075 RHS protein; Region: RHS; pfam03527 469008011076 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 469008011077 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008011078 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 469008011079 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008011080 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008011081 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 469008011082 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 469008011083 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 469008011084 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 469008011085 active site 469008011086 P-loop; other site 469008011087 phosphorylation site [posttranslational modification] 469008011088 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 469008011089 active site 469008011090 phosphorylation site [posttranslational modification] 469008011091 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 469008011092 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008011093 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008011094 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 469008011095 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 469008011096 hypothetical protein; Provisional; Region: PRK11020 469008011097 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 469008011098 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 469008011099 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469008011100 trimer interface [polypeptide binding]; other site 469008011101 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469008011102 trimer interface [polypeptide binding]; other site 469008011103 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469008011104 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 469008011105 trimer interface [polypeptide binding]; other site 469008011106 Haemagglutinin; Region: HIM; pfam05662 469008011107 Haemagglutinin; Region: HIM; pfam05662 469008011108 YadA-like C-terminal region; Region: YadA; pfam03895 469008011109 L-lactate permease; Provisional; Region: PRK10420 469008011110 glycolate transporter; Provisional; Region: PRK09695 469008011111 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 469008011112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011113 DNA-binding site [nucleotide binding]; DNA binding site 469008011114 FCD domain; Region: FCD; pfam07729 469008011115 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 469008011116 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 469008011117 phosphate binding site [ion binding]; other site 469008011118 putative rRNA methylase; Provisional; Region: PRK10358 469008011119 serine acetyltransferase; Provisional; Region: cysE; PRK11132 469008011120 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 469008011121 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 469008011122 trimer interface [polypeptide binding]; other site 469008011123 active site 469008011124 substrate binding site [chemical binding]; other site 469008011125 CoA binding site [chemical binding]; other site 469008011126 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 469008011127 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469008011128 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 469008011129 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 469008011130 SecA binding site; other site 469008011131 Preprotein binding site; other site 469008011132 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 469008011133 GSH binding site [chemical binding]; other site 469008011134 catalytic residues [active] 469008011135 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 469008011136 active site residue [active] 469008011137 phosphoglyceromutase; Provisional; Region: PRK05434 469008011138 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 469008011139 AmiB activator; Provisional; Region: PRK11637 469008011140 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 469008011141 Peptidase family M23; Region: Peptidase_M23; pfam01551 469008011142 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 469008011143 NodB motif; other site 469008011144 putative active site [active] 469008011145 putative catalytic site [active] 469008011146 Zn binding site [ion binding]; other site 469008011147 putative glycosyl transferase; Provisional; Region: PRK10073 469008011148 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 469008011149 active site 469008011150 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 469008011151 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469008011152 NAD(P) binding site [chemical binding]; other site 469008011153 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469008011154 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 469008011155 substrate-cofactor binding pocket; other site 469008011156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008011157 catalytic residue [active] 469008011158 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 469008011159 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 469008011160 NADP binding site [chemical binding]; other site 469008011161 homopentamer interface [polypeptide binding]; other site 469008011162 substrate binding site [chemical binding]; other site 469008011163 active site 469008011164 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469008011165 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 469008011166 putative active site [active] 469008011167 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469008011168 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 469008011169 putative active site [active] 469008011170 O-Antigen ligase; Region: Wzy_C; pfam04932 469008011171 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469008011172 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 469008011173 active site 469008011174 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 469008011175 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 469008011176 Ligand binding site; other site 469008011177 metal-binding site 469008011178 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 469008011179 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; pfam06176 469008011180 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 469008011181 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 469008011182 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008011183 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008011184 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008011185 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008011186 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008011187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008011188 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008011189 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008011190 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 469008011191 active site 469008011192 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 469008011193 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 469008011194 Ligand binding site; other site 469008011195 metal-binding site 469008011196 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 469008011197 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 469008011198 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 469008011199 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469008011200 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 469008011201 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 469008011202 putative active site [active] 469008011203 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 469008011204 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 469008011205 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 469008011206 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 469008011207 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 469008011208 active site 469008011209 (T/H)XGH motif; other site 469008011210 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 469008011211 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 469008011212 DNA binding site [nucleotide binding] 469008011213 catalytic residue [active] 469008011214 H2TH interface [polypeptide binding]; other site 469008011215 putative catalytic residues [active] 469008011216 turnover-facilitating residue; other site 469008011217 intercalation triad [nucleotide binding]; other site 469008011218 8OG recognition residue [nucleotide binding]; other site 469008011219 putative reading head residues; other site 469008011220 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 469008011221 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469008011222 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 469008011223 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 469008011224 hypothetical protein; Reviewed; Region: PRK00024 469008011225 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 469008011226 MPN+ (JAMM) motif; other site 469008011227 Zinc-binding site [ion binding]; other site 469008011228 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 469008011229 Flavoprotein; Region: Flavoprotein; pfam02441 469008011230 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 469008011231 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469008011232 trimer interface [polypeptide binding]; other site 469008011233 active site 469008011234 division inhibitor protein; Provisional; Region: slmA; PRK09480 469008011235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008011236 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469008011237 active site 469008011238 ribonuclease PH; Reviewed; Region: rph; PRK00173 469008011239 Ribonuclease PH; Region: RNase_PH_bact; cd11362 469008011240 hexamer interface [polypeptide binding]; other site 469008011241 active site 469008011242 hypothetical protein; Provisional; Region: PRK11820 469008011243 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 469008011244 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 469008011245 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 469008011246 BRO family, N-terminal domain; Region: Bro-N; pfam02498 469008011247 Predicted membrane protein [Function unknown]; Region: COG2860 469008011248 UPF0126 domain; Region: UPF0126; pfam03458 469008011249 UPF0126 domain; Region: UPF0126; pfam03458 469008011250 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 469008011251 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 469008011252 nucleotide binding pocket [chemical binding]; other site 469008011253 K-X-D-G motif; other site 469008011254 catalytic site [active] 469008011255 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469008011256 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 469008011257 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 469008011258 catalytic site [active] 469008011259 G-X2-G-X-G-K; other site 469008011260 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 469008011261 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 469008011262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469008011263 Zn2+ binding site [ion binding]; other site 469008011264 Mg2+ binding site [ion binding]; other site 469008011265 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469008011266 synthetase active site [active] 469008011267 NTP binding site [chemical binding]; other site 469008011268 metal binding site [ion binding]; metal-binding site 469008011269 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 469008011270 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469008011271 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 469008011272 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008011273 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 469008011274 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 469008011275 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 469008011276 generic binding surface II; other site 469008011277 ssDNA binding site; other site 469008011278 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 469008011279 ATP binding site [chemical binding]; other site 469008011280 putative Mg++ binding site [ion binding]; other site 469008011281 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 469008011282 nucleotide binding region [chemical binding]; other site 469008011283 ATP-binding site [chemical binding]; other site 469008011284 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 469008011285 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 469008011286 AsmA family; Region: AsmA; pfam05170 469008011287 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 469008011288 putative alpha-glucosidase; Provisional; Region: PRK10658 469008011289 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008011290 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 469008011291 active site 469008011292 homotrimer interface [polypeptide binding]; other site 469008011293 catalytic site [active] 469008011294 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 469008011295 putative transporter; Provisional; Region: PRK11462 469008011296 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469008011297 integrase; Provisional; Region: PRK09692 469008011298 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 469008011299 active site 469008011300 Int/Topo IB signature motif; other site 469008011301 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 469008011302 TPR motif; other site 469008011303 binding surface 469008011304 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469008011305 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008011306 DNA binding site [nucleotide binding] 469008011307 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 469008011308 ligand binding site [chemical binding]; other site 469008011309 dimerization interface [polypeptide binding]; other site 469008011310 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011311 D-galactonate transporter; Region: 2A0114; TIGR00893 469008011312 putative substrate translocation pore; other site 469008011313 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 469008011314 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008011315 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 469008011316 putative active site [active] 469008011317 putative catalytic site [active] 469008011318 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469008011319 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 469008011320 dimer interface [polypeptide binding]; other site 469008011321 ssDNA binding site [nucleotide binding]; other site 469008011322 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008011323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011324 Transposase; Region: HTH_Tnp_1; cl17663 469008011326 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 469008011327 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 469008011328 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 469008011329 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469008011330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011331 Transposase; Region: HTH_Tnp_1; pfam01527 469008011332 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 469008011333 Helix-turn-helix domain; Region: HTH_38; pfam13936 469008011334 Integrase core domain; Region: rve; pfam00665 469008011335 Methyltransferase domain; Region: Methyltransf_27; pfam13708 469008011336 sugar efflux transporter; Region: 2A0120; TIGR00899 469008011337 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011338 putative substrate translocation pore; other site 469008011339 EamA-like transporter family; Region: EamA; pfam00892 469008011340 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008011341 EamA-like transporter family; Region: EamA; pfam00892 469008011342 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 469008011343 lipoprotein, YaeC family; Region: TIGR00363 469008011344 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 469008011345 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 469008011346 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011347 putative substrate translocation pore; other site 469008011348 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 469008011349 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008011350 cryptic adenine deaminase; Provisional; Region: PRK10027 469008011351 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 469008011352 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 469008011353 active site 469008011354 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 469008011355 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 469008011356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011357 putative substrate translocation pore; other site 469008011358 regulatory protein UhpC; Provisional; Region: PRK11663 469008011359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011360 putative substrate translocation pore; other site 469008011361 sensory histidine kinase UhpB; Provisional; Region: PRK11644 469008011362 MASE1; Region: MASE1; pfam05231 469008011363 Histidine kinase; Region: HisKA_3; pfam07730 469008011364 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 469008011365 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 469008011366 active site 469008011367 phosphorylation site [posttranslational modification] 469008011368 intermolecular recognition site; other site 469008011369 dimerization interface [polypeptide binding]; other site 469008011370 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 469008011371 DNA binding residues [nucleotide binding] 469008011372 dimerization interface [polypeptide binding]; other site 469008011373 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 469008011374 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 469008011375 putative valine binding site [chemical binding]; other site 469008011376 dimer interface [polypeptide binding]; other site 469008011377 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 469008011378 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008011379 PYR/PP interface [polypeptide binding]; other site 469008011380 dimer interface [polypeptide binding]; other site 469008011381 TPP binding site [chemical binding]; other site 469008011382 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008011383 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 469008011384 TPP-binding site [chemical binding]; other site 469008011385 dimer interface [polypeptide binding]; other site 469008011386 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 469008011387 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011388 putative substrate translocation pore; other site 469008011389 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008011390 Domain of unknown function (DUF202); Region: DUF202; pfam02656 469008011391 Predicted membrane protein [Function unknown]; Region: COG2149 469008011392 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008011393 Sulfatase; Region: Sulfatase; pfam00884 469008011394 putative transporter; Provisional; Region: PRK10484 469008011395 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 469008011396 Na binding site [ion binding]; other site 469008011397 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008011398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008011399 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008011400 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 469008011401 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 469008011402 NAD binding site [chemical binding]; other site 469008011403 sugar binding site [chemical binding]; other site 469008011404 divalent metal binding site [ion binding]; other site 469008011405 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008011406 dimer interface [polypeptide binding]; other site 469008011407 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 469008011408 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 469008011409 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 469008011410 active site turn [active] 469008011411 phosphorylation site [posttranslational modification] 469008011412 PTS system arbutin-specific transporter subunit IIB; Provisional; Region: PRK09702 469008011413 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008011414 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 469008011415 active site turn [active] 469008011416 phosphorylation site [posttranslational modification] 469008011418 putative transporter; Validated; Region: PRK03818 469008011419 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469008011420 TrkA-C domain; Region: TrkA_C; pfam02080 469008011421 TrkA-C domain; Region: TrkA_C; pfam02080 469008011422 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 469008011423 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 469008011424 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 469008011425 putative dimer interface [polypeptide binding]; other site 469008011426 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 469008011427 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 469008011428 putative dimer interface [polypeptide binding]; other site 469008011429 hypothetical protein; Provisional; Region: PRK11616 469008011430 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 469008011431 putative oxidoreductase; Provisional; Region: PRK11445 469008011432 hypothetical protein; Provisional; Region: PRK07236 469008011433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011434 D-galactonate transporter; Region: 2A0114; TIGR00893 469008011435 putative substrate translocation pore; other site 469008011436 galactonate dehydratase; Provisional; Region: PRK14017 469008011437 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 469008011438 putative active site pocket [active] 469008011439 putative metal binding site [ion binding]; other site 469008011440 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 469008011441 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008011442 active site 469008011443 intersubunit interface [polypeptide binding]; other site 469008011444 catalytic residue [active] 469008011445 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 469008011446 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 469008011447 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008011448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011449 DNA-binding site [nucleotide binding]; DNA binding site 469008011450 FCD domain; Region: FCD; pfam07729 469008011451 hypothetical protein; Provisional; Region: PRK10215 469008011452 sugar phosphate phosphatase; Provisional; Region: PRK10513 469008011453 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 469008011454 active site 469008011455 motif I; other site 469008011456 motif II; other site 469008011457 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 469008011458 hypothetical protein; Provisional; Region: PRK11426 469008011459 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 469008011460 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 469008011461 Mg2+ binding site [ion binding]; other site 469008011462 G-X-G motif; other site 469008011463 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 469008011464 anchoring element; other site 469008011465 dimer interface [polypeptide binding]; other site 469008011466 ATP binding site [chemical binding]; other site 469008011467 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 469008011468 active site 469008011469 putative metal-binding site [ion binding]; other site 469008011470 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469008011471 recF protein; Region: recf; TIGR00611 469008011472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008011473 Walker A/P-loop; other site 469008011474 ATP binding site [chemical binding]; other site 469008011475 Q-loop/lid; other site 469008011476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008011477 ABC transporter signature motif; other site 469008011478 Walker B; other site 469008011479 D-loop; other site 469008011480 H-loop/switch region; other site 469008011481 DNA polymerase III subunit beta; Validated; Region: PRK05643 469008011482 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 469008011483 putative DNA binding surface [nucleotide binding]; other site 469008011484 dimer interface [polypeptide binding]; other site 469008011485 beta-clamp/clamp loader binding surface; other site 469008011486 beta-clamp/translesion DNA polymerase binding surface; other site 469008011487 DnaA N-terminal domain; Region: DnaA_N; pfam11638 469008011488 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 469008011489 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 469008011490 Walker A motif; other site 469008011491 ATP binding site [chemical binding]; other site 469008011492 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 469008011493 Walker B motif; other site 469008011494 arginine finger; other site 469008011495 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 469008011496 DnaA box-binding interface [nucleotide binding]; other site 469008011497 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 469008011498 ribonuclease P; Reviewed; Region: rnpA; PRK01732 469008011499 hypothetical protein; Validated; Region: PRK00041 469008011500 membrane protein insertase; Provisional; Region: PRK01318 469008011501 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 469008011502 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 469008011503 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 469008011504 trmE is a tRNA modification GTPase; Region: trmE; cd04164 469008011505 G1 box; other site 469008011506 GTP/Mg2+ binding site [chemical binding]; other site 469008011507 Switch I region; other site 469008011508 G2 box; other site 469008011509 Switch II region; other site 469008011510 G3 box; other site 469008011511 G4 box; other site 469008011512 G5 box; other site 469008011513 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 469008011514 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 469008011515 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 469008011516 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 469008011517 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469008011518 catalytic residue [active] 469008011519 tryptophan permease TnaB; Provisional; Region: PRK09664 469008011520 aromatic amino acid transport protein; Region: araaP; TIGR00837 469008011521 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 469008011522 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011523 putative substrate translocation pore; other site 469008011524 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 469008011525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011526 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 469008011527 substrate binding pocket [chemical binding]; other site 469008011528 dimerization interface [polypeptide binding]; other site 469008011529 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 469008011530 Predicted flavoprotein [General function prediction only]; Region: COG0431 469008011531 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469008011532 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008011533 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 469008011534 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 469008011535 active site 469008011536 motif I; other site 469008011537 motif II; other site 469008011538 putative inner membrane protein; Provisional; Region: PRK09823 469008011539 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 469008011540 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469008011541 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 469008011542 active site 469008011543 trimer interface [polypeptide binding]; other site 469008011544 allosteric site; other site 469008011545 active site lid [active] 469008011546 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 469008011547 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 469008011548 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 469008011549 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 469008011550 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 469008011551 trimer interface; other site 469008011552 sugar binding site [chemical binding]; other site 469008011553 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 469008011554 beta-galactosidase; Region: BGL; TIGR03356 469008011555 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 469008011556 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 469008011557 active site turn [active] 469008011558 phosphorylation site [posttranslational modification] 469008011559 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008011560 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 469008011561 HPr interaction site; other site 469008011562 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469008011563 active site 469008011564 phosphorylation site [posttranslational modification] 469008011565 transcriptional antiterminator BglG; Provisional; Region: PRK09772 469008011566 CAT RNA binding domain; Region: CAT_RBD; pfam03123 469008011567 PRD domain; Region: PRD; pfam00874 469008011568 PRD domain; Region: PRD; pfam00874 469008011569 transcriptional regulator PhoU; Provisional; Region: PRK11115 469008011570 PhoU domain; Region: PhoU; pfam01895 469008011571 PhoU domain; Region: PhoU; pfam01895 469008011572 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 469008011573 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 469008011574 Walker A/P-loop; other site 469008011575 ATP binding site [chemical binding]; other site 469008011576 Q-loop/lid; other site 469008011577 ABC transporter signature motif; other site 469008011578 Walker B; other site 469008011579 D-loop; other site 469008011580 H-loop/switch region; other site 469008011581 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 469008011582 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 469008011583 dimer interface [polypeptide binding]; other site 469008011584 conserved gate region; other site 469008011585 putative PBP binding loops; other site 469008011586 ABC-ATPase subunit interface; other site 469008011587 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 469008011588 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 469008011589 dimer interface [polypeptide binding]; other site 469008011590 conserved gate region; other site 469008011591 putative PBP binding loops; other site 469008011592 ABC-ATPase subunit interface; other site 469008011593 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 469008011594 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 469008011595 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 469008011596 glutaminase active site [active] 469008011597 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 469008011598 dimer interface [polypeptide binding]; other site 469008011599 active site 469008011600 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 469008011601 dimer interface [polypeptide binding]; other site 469008011602 active site 469008011603 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 469008011604 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 469008011605 Substrate binding site; other site 469008011606 Mg++ binding site; other site 469008011607 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 469008011608 active site 469008011609 substrate binding site [chemical binding]; other site 469008011610 CoA binding site [chemical binding]; other site 469008011611 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 469008011612 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 469008011613 gamma subunit interface [polypeptide binding]; other site 469008011614 epsilon subunit interface [polypeptide binding]; other site 469008011615 LBP interface [polypeptide binding]; other site 469008011616 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 469008011617 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469008011618 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 469008011619 alpha subunit interaction interface [polypeptide binding]; other site 469008011620 Walker A motif; other site 469008011621 ATP binding site [chemical binding]; other site 469008011622 Walker B motif; other site 469008011623 inhibitor binding site; inhibition site 469008011624 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469008011625 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 469008011626 core domain interface [polypeptide binding]; other site 469008011627 delta subunit interface [polypeptide binding]; other site 469008011628 epsilon subunit interface [polypeptide binding]; other site 469008011629 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 469008011630 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469008011631 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 469008011632 beta subunit interaction interface [polypeptide binding]; other site 469008011633 Walker A motif; other site 469008011634 ATP binding site [chemical binding]; other site 469008011635 Walker B motif; other site 469008011636 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469008011637 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 469008011638 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 469008011639 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 469008011640 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 469008011641 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 469008011642 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 469008011643 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 469008011644 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 469008011645 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 469008011646 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 469008011647 S-adenosylmethionine binding site [chemical binding]; other site 469008011648 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 469008011649 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 469008011650 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469008011651 FMN-binding protein MioC; Provisional; Region: PRK09004 469008011652 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 469008011653 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 469008011654 putative DNA binding site [nucleotide binding]; other site 469008011655 putative Zn2+ binding site [ion binding]; other site 469008011656 AsnC family; Region: AsnC_trans_reg; pfam01037 469008011657 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 469008011658 dimer interface [polypeptide binding]; other site 469008011659 active site 469008011660 hypothetical protein; Provisional; Region: yieM; PRK10997 469008011661 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 469008011662 metal ion-dependent adhesion site (MIDAS); other site 469008011663 regulatory ATPase RavA; Provisional; Region: PRK13531 469008011664 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 469008011665 Walker A motif; other site 469008011666 ATP binding site [chemical binding]; other site 469008011667 Walker B motif; other site 469008011668 arginine finger; other site 469008011669 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 469008011670 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 469008011671 potassium uptake protein; Region: kup; TIGR00794 469008011673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011674 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011675 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011676 putative transposase OrfB; Reviewed; Region: PHA02517 469008011677 HTH-like domain; Region: HTH_21; pfam13276 469008011678 Integrase core domain; Region: rve; pfam00665 469008011679 Integrase core domain; Region: rve_2; pfam13333 469008011680 putative transposase OrfB; Reviewed; Region: PHA02517 469008011681 HTH-like domain; Region: HTH_21; pfam13276 469008011682 Integrase core domain; Region: rve; pfam00665 469008011683 Integrase core domain; Region: rve_2; pfam13333 469008011684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008011685 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011686 Helix-turn-helix domain; Region: HTH_28; pfam13518 469008011687 ribose pyranase, interrupted by IS element, C-ter fragment 469008011688 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 469008011689 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008011690 Walker A/P-loop; other site 469008011691 ATP binding site [chemical binding]; other site 469008011692 Q-loop/lid; other site 469008011693 ABC transporter signature motif; other site 469008011694 Walker B; other site 469008011695 D-loop; other site 469008011696 H-loop/switch region; other site 469008011697 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008011698 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008011699 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 469008011700 TM-ABC transporter signature motif; other site 469008011701 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 469008011702 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 469008011703 ligand binding site [chemical binding]; other site 469008011704 dimerization interface [polypeptide binding]; other site 469008011705 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 469008011706 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008011707 substrate binding site [chemical binding]; other site 469008011708 dimer interface [polypeptide binding]; other site 469008011709 ATP binding site [chemical binding]; other site 469008011710 transcriptional repressor RbsR; Provisional; Region: PRK10423 469008011711 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008011712 DNA binding site [nucleotide binding] 469008011713 domain linker motif; other site 469008011714 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 469008011715 dimerization interface [polypeptide binding]; other site 469008011716 ligand binding site [chemical binding]; other site 469008011717 putative transporter; Provisional; Region: PRK10504 469008011718 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011719 putative substrate translocation pore; other site 469008011720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008011721 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469008011722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008011723 DNA-binding site [nucleotide binding]; DNA binding site 469008011724 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008011725 transcriptional regulator HdfR; Provisional; Region: PRK03601 469008011726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011727 LysR substrate binding domain; Region: LysR_substrate; pfam03466 469008011728 dimerization interface [polypeptide binding]; other site 469008011729 hypothetical protein; Provisional; Region: PRK11027 469008011730 putative ATP-dependent protease; Provisional; Region: PRK09862 469008011731 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469008011732 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 469008011733 Walker A motif; other site 469008011734 ATP binding site [chemical binding]; other site 469008011735 Walker B motif; other site 469008011736 arginine finger; other site 469008011737 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 469008011738 ilvG operon leader peptide; Provisional; Region: PRK10424 469008011739 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 469008011740 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 469008011741 PYR/PP interface [polypeptide binding]; other site 469008011742 dimer interface [polypeptide binding]; other site 469008011743 TPP binding site [chemical binding]; other site 469008011744 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 469008011745 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 469008011746 TPP-binding site [chemical binding]; other site 469008011747 dimer interface [polypeptide binding]; other site 469008011748 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 469008011749 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469008011750 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 469008011751 homodimer interface [polypeptide binding]; other site 469008011752 substrate-cofactor binding pocket; other site 469008011753 catalytic residue [active] 469008011754 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 469008011755 threonine dehydratase; Reviewed; Region: PRK09224 469008011756 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 469008011757 tetramer interface [polypeptide binding]; other site 469008011758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008011759 catalytic residue [active] 469008011760 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 469008011761 putative Ile/Val binding site [chemical binding]; other site 469008011762 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 469008011763 putative Ile/Val binding site [chemical binding]; other site 469008011764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011765 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 469008011766 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 469008011767 putative dimerization interface [polypeptide binding]; other site 469008011768 ketol-acid reductoisomerase; Validated; Region: PRK05225 469008011769 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 469008011770 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 469008011771 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 469008011772 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 469008011773 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 469008011774 PemK-like protein; Region: PemK; cl00995 469008011775 PemK-like protein; Region: PemK; cl00995 469008011776 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 469008011777 Part of AAA domain; Region: AAA_19; pfam13245 469008011778 Family description; Region: UvrD_C_2; pfam13538 469008011779 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 469008011780 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469008011781 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 469008011782 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 469008011783 ATP binding site [chemical binding]; other site 469008011784 Mg++ binding site [ion binding]; other site 469008011785 motif III; other site 469008011786 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 469008011787 nucleotide binding region [chemical binding]; other site 469008011788 ATP-binding site [chemical binding]; other site 469008011789 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 469008011790 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469008011791 catalytic residues [active] 469008011792 putative rho operon leader peptide; Provisional; Region: PRK09979 469008011793 transcription termination factor Rho; Provisional; Region: rho; PRK09376 469008011794 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 469008011795 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 469008011796 RNA binding site [nucleotide binding]; other site 469008011797 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 469008011798 multimer interface [polypeptide binding]; other site 469008011799 Walker A motif; other site 469008011800 ATP binding site [chemical binding]; other site 469008011801 Walker B motif; other site 469008011802 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 469008011803 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 469008011804 Mg++ binding site [ion binding]; other site 469008011805 putative catalytic motif [active] 469008011806 substrate binding site [chemical binding]; other site 469008011807 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 469008011808 Chain length determinant protein; Region: Wzz; pfam02706 469008011809 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 469008011810 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 469008011811 active site 469008011812 homodimer interface [polypeptide binding]; other site 469008011813 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 469008011814 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 469008011815 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 469008011816 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 469008011817 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 469008011818 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469008011819 NAD binding site [chemical binding]; other site 469008011820 substrate binding site [chemical binding]; other site 469008011821 homodimer interface [polypeptide binding]; other site 469008011822 active site 469008011823 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 469008011824 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 469008011825 substrate binding site; other site 469008011826 tetramer interface; other site 469008011827 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 469008011828 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 469008011829 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 469008011830 inhibitor-cofactor binding pocket; inhibition site 469008011831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008011832 catalytic residue [active] 469008011833 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469008011834 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 469008011835 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 469008011836 putative common antigen polymerase; Provisional; Region: PRK02975 469008011837 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 469008011838 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 469008011839 putative transport protein YifK; Provisional; Region: PRK10746 469008011840 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 469008011841 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 469008011842 FeS/SAM binding site; other site 469008011843 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 469008011844 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 469008011845 Sulfatase; Region: Sulfatase; pfam00884 469008011846 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 469008011847 HemY protein N-terminus; Region: HemY_N; pfam07219 469008011848 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 469008011849 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 469008011850 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 469008011851 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 469008011852 active site 469008011853 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 469008011854 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 469008011855 domain interfaces; other site 469008011856 active site 469008011857 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 469008011858 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 469008011859 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 469008011860 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 469008011861 putative iron binding site [ion binding]; other site 469008011862 hypothetical protein; Provisional; Region: PRK09807 469008011863 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 469008011864 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 469008011865 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 469008011866 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 469008011867 hypothetical protein; Provisional; Region: PRK10963 469008011868 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 469008011869 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 469008011870 active site 469008011871 DNA binding site [nucleotide binding] 469008011872 Int/Topo IB signature motif; other site 469008011873 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 469008011874 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 469008011875 motif II; other site 469008011876 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 469008011877 Part of AAA domain; Region: AAA_19; pfam13245 469008011878 Family description; Region: UvrD_C_2; pfam13538 469008011879 Uncharacterized conserved protein [Function unknown]; Region: COG1912 469008011880 Predicted periplasmic protein [Function unknown]; Region: COG3698 469008011881 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 469008011882 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469008011883 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 469008011884 Cl binding site [ion binding]; other site 469008011885 oligomer interface [polypeptide binding]; other site 469008011886 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 469008011887 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 469008011889 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 469008011891 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 469008011892 EamA-like transporter family; Region: EamA; cl17759 469008011893 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 469008011894 CoenzymeA binding site [chemical binding]; other site 469008011895 subunit interaction site [polypeptide binding]; other site 469008011896 PHB binding site; other site 469008011897 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 469008011898 dimerization interface [polypeptide binding]; other site 469008011899 substrate binding site [chemical binding]; other site 469008011900 active site 469008011901 calcium binding site [ion binding]; other site 469008011902 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 469008011903 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 469008011904 ATP binding site [chemical binding]; other site 469008011905 putative Mg++ binding site [ion binding]; other site 469008011906 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 469008011907 nucleotide binding region [chemical binding]; other site 469008011908 ATP-binding site [chemical binding]; other site 469008011909 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 469008011910 Helicase and RNase D C-terminal; Region: HRDC; smart00341 469008011911 threonine efflux system; Provisional; Region: PRK10229 469008011912 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 469008011913 lysophospholipase L2; Provisional; Region: PRK10749 469008011914 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469008011915 putative hydrolase; Provisional; Region: PRK10976 469008011916 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 469008011917 active site 469008011918 motif I; other site 469008011919 motif II; other site 469008011920 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 469008011921 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008011922 EamA-like transporter family; Region: EamA; pfam00892 469008011923 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 469008011924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011925 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 469008011926 putative dimerization interface [polypeptide binding]; other site 469008011927 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 469008011928 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 469008011929 THF binding site; other site 469008011930 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 469008011931 substrate binding site [chemical binding]; other site 469008011932 THF binding site; other site 469008011933 zinc-binding site [ion binding]; other site 469008011934 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 469008011935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008011936 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 469008011937 dimerization interface [polypeptide binding]; other site 469008011938 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 469008011939 Na binding site [ion binding]; other site 469008011940 allophanate hydrolase; Provisional; Region: PRK08186 469008011941 carbamate kinase; Reviewed; Region: PRK12686 469008011942 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 469008011943 putative substrate binding site [chemical binding]; other site 469008011944 nucleotide binding site [chemical binding]; other site 469008011945 nucleotide binding site [chemical binding]; other site 469008011946 homodimer interface [polypeptide binding]; other site 469008011947 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 469008011948 membrane protein FdrA; Validated; Region: PRK06091 469008011949 CoA binding domain; Region: CoA_binding; pfam02629 469008011950 CoA-ligase; Region: Ligase_CoA; pfam00549 469008011951 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 469008011952 Isochorismatase family; Region: Isochorismatase; pfam00857 469008011953 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 469008011954 catalytic triad [active] 469008011955 conserved cis-peptide bond; other site 469008011956 Dienelactone hydrolase family; Region: DLH; pfam01738 469008011957 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 469008011958 uridine phosphorylase; Provisional; Region: PRK11178 469008011959 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 469008011960 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 469008011961 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 469008011962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 469008011963 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 469008011964 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469008011965 active site 469008011966 intersubunit interface [polypeptide binding]; other site 469008011967 catalytic residue [active] 469008011968 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 469008011969 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 469008011970 Transcriptional regulator [Transcription]; Region: IclR; COG1414 469008011971 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008011972 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008011973 DNA recombination protein RmuC; Provisional; Region: PRK10361 469008011974 RmuC family; Region: RmuC; pfam02646 469008011975 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 469008011976 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 469008011977 S-adenosylmethionine binding site [chemical binding]; other site 469008011978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 469008011979 SCP-2 sterol transfer family; Region: SCP2; pfam02036 469008011980 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 469008011981 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 469008011982 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 469008011983 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 469008011984 sec-independent translocase; Provisional; Region: PRK01770 469008011985 sec-independent translocase; Provisional; Region: tatB; PRK00404 469008011986 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 469008011987 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008011988 active site 469008011989 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 469008011990 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 469008011991 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 469008011992 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 469008011993 FMN reductase; Validated; Region: fre; PRK08051 469008011994 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 469008011995 FAD binding pocket [chemical binding]; other site 469008011996 FAD binding motif [chemical binding]; other site 469008011997 phosphate binding motif [ion binding]; other site 469008011998 beta-alpha-beta structure motif; other site 469008011999 NAD binding pocket [chemical binding]; other site 469008012000 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 469008012001 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 469008012002 dimer interface [polypeptide binding]; other site 469008012003 active site 469008012004 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 469008012005 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 469008012006 substrate binding site [chemical binding]; other site 469008012007 oxyanion hole (OAH) forming residues; other site 469008012008 trimer interface [polypeptide binding]; other site 469008012009 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469008012010 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008012011 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469008012012 proline dipeptidase; Provisional; Region: PRK13607 469008012013 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 469008012014 active site 469008012015 hypothetical protein; Provisional; Region: PRK11568 469008012016 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 469008012017 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 469008012018 potassium transporter; Provisional; Region: PRK10750 469008012019 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469008012020 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 469008012021 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 469008012022 Walker A motif; other site 469008012023 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 469008012024 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 469008012025 GTP binding site; other site 469008012026 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 469008012027 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 469008012028 serine/threonine protein kinase; Provisional; Region: PRK11768 469008012029 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 469008012030 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 469008012031 catalytic residues [active] 469008012032 hinge region; other site 469008012033 alpha helical domain; other site 469008012034 hypothetical protein; Provisional; Region: PRK11367 469008012035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 469008012036 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469008012037 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 469008012038 putative acyl-acceptor binding pocket; other site 469008012039 DNA polymerase I; Provisional; Region: PRK05755 469008012040 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469008012041 active site 469008012042 metal binding site 1 [ion binding]; metal-binding site 469008012043 putative 5' ssDNA interaction site; other site 469008012044 metal binding site 3; metal-binding site 469008012045 metal binding site 2 [ion binding]; metal-binding site 469008012046 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469008012047 putative DNA binding site [nucleotide binding]; other site 469008012048 putative metal binding site [ion binding]; other site 469008012049 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 469008012050 active site 469008012051 catalytic site [active] 469008012052 substrate binding site [chemical binding]; other site 469008012053 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 469008012054 active site 469008012055 DNA binding site [nucleotide binding] 469008012056 catalytic site [active] 469008012057 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 469008012058 G1 box; other site 469008012059 GTP/Mg2+ binding site [chemical binding]; other site 469008012060 Switch I region; other site 469008012061 G2 box; other site 469008012062 G3 box; other site 469008012063 Switch II region; other site 469008012064 G4 box; other site 469008012065 G5 box; other site 469008012066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 469008012067 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 469008012068 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 469008012069 FeS/SAM binding site; other site 469008012070 HemN C-terminal domain; Region: HemN_C; pfam06969 469008012071 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 469008012072 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 469008012073 active site 469008012074 phosphorylation site [posttranslational modification] 469008012075 intermolecular recognition site; other site 469008012076 dimerization interface [polypeptide binding]; other site 469008012077 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 469008012078 Walker A motif; other site 469008012079 ATP binding site [chemical binding]; other site 469008012080 Walker B motif; other site 469008012081 arginine finger; other site 469008012082 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008012083 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 469008012084 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 469008012085 putative active site [active] 469008012086 heme pocket [chemical binding]; other site 469008012087 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 469008012088 dimer interface [polypeptide binding]; other site 469008012089 phosphorylation site [posttranslational modification] 469008012090 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 469008012091 ATP binding site [chemical binding]; other site 469008012092 Mg2+ binding site [ion binding]; other site 469008012093 G-X-G motif; other site 469008012094 glutamine synthetase; Provisional; Region: glnA; PRK09469 469008012095 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 469008012096 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469008012097 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 469008012098 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 469008012099 G1 box; other site 469008012100 putative GEF interaction site [polypeptide binding]; other site 469008012101 GTP/Mg2+ binding site [chemical binding]; other site 469008012102 Switch I region; other site 469008012103 G2 box; other site 469008012104 G3 box; other site 469008012105 Switch II region; other site 469008012106 G4 box; other site 469008012107 G5 box; other site 469008012108 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 469008012109 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 469008012110 transcriptional regulator protein; Region: phnR; TIGR03337 469008012111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008012112 DNA-binding site [nucleotide binding]; DNA binding site 469008012113 UTRA domain; Region: UTRA; pfam07702 469008012114 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469008012115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012116 putative substrate translocation pore; other site 469008012117 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 469008012118 outer membrane porin L; Provisional; Region: ompL; PRK09980 469008012119 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008012120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012121 putative substrate translocation pore; other site 469008012122 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469008012123 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008012124 alpha-glucosidase; Provisional; Region: PRK10426 469008012125 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 469008012126 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 469008012127 putative active site [active] 469008012128 putative catalytic site [active] 469008012129 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 469008012130 active site 469008012131 catalytic residues [active] 469008012132 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 469008012133 dimerization interface [polypeptide binding]; other site 469008012134 putative active cleft [active] 469008012135 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 469008012136 catalytic residue [active] 469008012137 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 469008012138 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 469008012139 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469008012140 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 469008012141 substrate binding site [chemical binding]; other site 469008012142 ATP binding site [chemical binding]; other site 469008012143 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008012144 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 469008012145 putative DNA binding site [nucleotide binding]; other site 469008012146 putative Zn2+ binding site [ion binding]; other site 469008012147 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008012148 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 469008012149 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 469008012150 motif II; other site 469008012151 hypothetical protein; Reviewed; Region: PRK01637 469008012152 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 469008012153 putative active site [active] 469008012154 dimerization interface [polypeptide binding]; other site 469008012155 putative tRNAtyr binding site [nucleotide binding]; other site 469008012156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008012157 Coenzyme A binding pocket [chemical binding]; other site 469008012158 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 469008012159 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 469008012160 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 469008012161 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 469008012162 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 469008012163 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 469008012164 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 469008012165 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 469008012166 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 469008012167 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 469008012168 [4Fe-4S] binding site [ion binding]; other site 469008012169 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 469008012170 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 469008012171 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 469008012172 molybdopterin cofactor binding site; other site 469008012173 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 469008012174 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 469008012175 putative frv operon regulatory protein; Provisional; Region: PRK09863 469008012176 HTH domain; Region: HTH_11; pfam08279 469008012177 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 469008012178 active site 469008012179 phosphorylation site [posttranslational modification] 469008012180 putative peptidase; Provisional; Region: PRK09864 469008012181 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 469008012182 oligomer interface [polypeptide binding]; other site 469008012183 active site 469008012184 metal binding site [ion binding]; metal-binding site 469008012185 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 469008012186 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 469008012187 active site 469008012188 P-loop; other site 469008012189 phosphorylation site [posttranslational modification] 469008012190 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469008012191 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 469008012192 active site 469008012193 phosphorylation site [posttranslational modification] 469008012194 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 469008012195 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 469008012196 intersubunit interface [polypeptide binding]; other site 469008012197 active site 469008012198 Zn2+ binding site [ion binding]; other site 469008012199 L-rhamnose isomerase; Provisional; Region: PRK01076 469008012200 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 469008012201 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 469008012202 N- and C-terminal domain interface [polypeptide binding]; other site 469008012203 active site 469008012204 putative catalytic site [active] 469008012205 metal binding site [ion binding]; metal-binding site 469008012206 ATP binding site [chemical binding]; other site 469008012207 rhamnulokinase; Provisional; Region: rhaB; PRK10640 469008012208 carbohydrate binding site [chemical binding]; other site 469008012209 transcriptional activator RhaS; Provisional; Region: PRK13503 469008012210 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008012211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012213 transcriptional activator RhaR; Provisional; Region: PRK13500 469008012214 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 469008012215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012217 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 469008012218 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 469008012219 superoxide dismutase; Provisional; Region: PRK10925 469008012220 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 469008012221 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 469008012222 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 469008012223 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 469008012224 MOSC domain; Region: MOSC; pfam03473 469008012225 3-alpha domain; Region: 3-alpha; pfam03475 469008012226 two-component sensor protein; Provisional; Region: cpxA; PRK09470 469008012227 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 469008012228 dimerization interface [polypeptide binding]; other site 469008012229 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 469008012230 dimer interface [polypeptide binding]; other site 469008012231 phosphorylation site [posttranslational modification] 469008012232 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 469008012233 ATP binding site [chemical binding]; other site 469008012234 Mg2+ binding site [ion binding]; other site 469008012235 G-X-G motif; other site 469008012236 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 469008012237 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 469008012238 active site 469008012239 intermolecular recognition site; other site 469008012240 dimerization interface [polypeptide binding]; other site 469008012241 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 469008012242 DNA binding site [nucleotide binding] 469008012243 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 469008012244 dimer interface [polypeptide binding]; other site 469008012245 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 469008012246 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 469008012247 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 469008012248 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 469008012249 active site 469008012250 ADP/pyrophosphate binding site [chemical binding]; other site 469008012251 dimerization interface [polypeptide binding]; other site 469008012252 allosteric effector site; other site 469008012253 fructose-1,6-bisphosphate binding site; other site 469008012254 sulfate transporter subunit; Provisional; Region: PRK10752 469008012255 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469008012256 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 469008012257 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 469008012258 triosephosphate isomerase; Provisional; Region: PRK14567 469008012259 substrate binding site [chemical binding]; other site 469008012260 dimer interface [polypeptide binding]; other site 469008012261 catalytic triad [active] 469008012262 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 469008012263 Predicted membrane protein [Function unknown]; Region: COG3152 469008012264 hypothetical protein; Provisional; Region: PRK09981 469008012265 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 469008012266 Ligand Binding Site [chemical binding]; other site 469008012267 ferredoxin-NADP reductase; Provisional; Region: PRK10926 469008012268 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 469008012269 FAD binding pocket [chemical binding]; other site 469008012270 FAD binding motif [chemical binding]; other site 469008012271 phosphate binding motif [ion binding]; other site 469008012272 beta-alpha-beta structure motif; other site 469008012273 NAD binding pocket [chemical binding]; other site 469008012274 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469008012275 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 469008012276 putative active site [active] 469008012277 glycerol kinase; Provisional; Region: glpK; PRK00047 469008012278 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 469008012279 N- and C-terminal domain interface [polypeptide binding]; other site 469008012280 active site 469008012281 MgATP binding site [chemical binding]; other site 469008012282 catalytic site [active] 469008012283 metal binding site [ion binding]; metal-binding site 469008012284 glycerol binding site [chemical binding]; other site 469008012285 homotetramer interface [polypeptide binding]; other site 469008012286 homodimer interface [polypeptide binding]; other site 469008012287 FBP binding site [chemical binding]; other site 469008012288 protein IIAGlc interface [polypeptide binding]; other site 469008012289 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 469008012290 amphipathic channel; other site 469008012291 Asn-Pro-Ala signature motifs; other site 469008012292 septal ring assembly protein ZapB; Provisional; Region: PRK15422 469008012293 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 469008012294 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 469008012295 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008012296 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 469008012297 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 469008012298 Walker A motif; other site 469008012299 ATP binding site [chemical binding]; other site 469008012300 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 469008012301 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469008012302 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 469008012303 active site 469008012304 HslU subunit interaction site [polypeptide binding]; other site 469008012305 essential cell division protein FtsN; Provisional; Region: PRK10927 469008012306 cell division protein FtsN; Provisional; Region: PRK12757 469008012307 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008012308 DNA binding site [nucleotide binding] 469008012309 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 469008012310 domain linker motif; other site 469008012311 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 469008012312 dimerization interface [polypeptide binding]; other site 469008012313 ligand binding site [chemical binding]; other site 469008012314 primosome assembly protein PriA; Validated; Region: PRK05580 469008012315 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 469008012316 ATP binding site [chemical binding]; other site 469008012317 putative Mg++ binding site [ion binding]; other site 469008012318 helicase superfamily c-terminal domain; Region: HELICc; smart00490 469008012319 ATP-binding site [chemical binding]; other site 469008012320 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 469008012321 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 469008012322 hypothetical protein; Provisional; Region: PRK10030 469008012323 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 469008012324 dimerization interface [polypeptide binding]; other site 469008012325 DNA binding site [nucleotide binding] 469008012326 corepressor binding sites; other site 469008012327 cystathionine gamma-synthase; Provisional; Region: PRK08045 469008012328 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 469008012329 homodimer interface [polypeptide binding]; other site 469008012330 substrate-cofactor binding pocket; other site 469008012331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012332 catalytic residue [active] 469008012333 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 469008012334 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 469008012335 putative catalytic residues [active] 469008012336 putative nucleotide binding site [chemical binding]; other site 469008012337 putative aspartate binding site [chemical binding]; other site 469008012338 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 469008012339 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 469008012340 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 469008012341 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 469008012342 FAD binding site [chemical binding]; other site 469008012343 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 469008012344 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 469008012345 heme binding site [chemical binding]; other site 469008012346 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 469008012347 EamA-like transporter family; Region: EamA; pfam00892 469008012348 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469008012349 EamA-like transporter family; Region: EamA; pfam00892 469008012350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 469008012351 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 469008012352 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 469008012353 dimer interface [polypeptide binding]; other site 469008012354 active site 469008012355 metal binding site [ion binding]; metal-binding site 469008012356 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 469008012357 active site 469008012358 intersubunit interactions; other site 469008012359 catalytic residue [active] 469008012360 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 469008012361 dimerization domain swap beta strand [polypeptide binding]; other site 469008012362 regulatory protein interface [polypeptide binding]; other site 469008012363 active site 469008012364 regulatory phosphorylation site [posttranslational modification]; other site 469008012365 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469008012366 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469008012367 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469008012368 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469008012369 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 469008012370 active site 469008012371 phosphorylation site [posttranslational modification] 469008012372 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 469008012373 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 469008012374 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 469008012375 active site 469008012376 P-loop; other site 469008012377 phosphorylation site [posttranslational modification] 469008012378 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 469008012379 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 469008012380 dimer interface [polypeptide binding]; other site 469008012381 active site 469008012382 glycine loop; other site 469008012383 pyruvate formate lyase II activase; Provisional; Region: PRK10076 469008012384 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 469008012385 active site 469008012386 P-loop; other site 469008012387 phosphorylation site [posttranslational modification] 469008012388 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008012389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012390 hypothetical protein; Provisional; Region: PRK10649 469008012391 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008012392 Sulfatase; Region: Sulfatase; pfam00884 469008012393 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 469008012394 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 469008012395 acetylornithine deacetylase; Provisional; Region: PRK05111 469008012396 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 469008012397 metal binding site [ion binding]; metal-binding site 469008012398 putative dimer interface [polypeptide binding]; other site 469008012399 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 469008012400 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 469008012401 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 469008012402 nucleotide binding site [chemical binding]; other site 469008012403 N-acetyl-L-glutamate binding site [chemical binding]; other site 469008012404 argininosuccinate lyase; Provisional; Region: PRK04833 469008012405 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 469008012406 active sites [active] 469008012407 tetramer interface [polypeptide binding]; other site 469008012408 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 469008012409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008012410 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 469008012411 dimerization interface [polypeptide binding]; other site 469008012412 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 469008012413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469008012414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469008012415 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 469008012416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008012417 hypothetical protein; Provisional; Region: PRK11056 469008012418 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 469008012419 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 469008012420 S-adenosylmethionine binding site [chemical binding]; other site 469008012422 glutamate racemase; Provisional; Region: PRK00865 469008012423 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 469008012424 FAD binding domain; Region: FAD_binding_4; pfam01565 469008012425 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 469008012426 Biotin operon repressor [Transcription]; Region: BirA; COG1654 469008012427 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 469008012428 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 469008012429 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 469008012430 pantothenate kinase; Provisional; Region: PRK05439 469008012431 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 469008012432 ATP-binding site [chemical binding]; other site 469008012433 CoA-binding site [chemical binding]; other site 469008012434 Mg2+-binding site [ion binding]; other site 469008012435 elongation factor Tu; Reviewed; Region: PRK00049 469008012436 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469008012437 G1 box; other site 469008012438 GEF interaction site [polypeptide binding]; other site 469008012439 GTP/Mg2+ binding site [chemical binding]; other site 469008012440 Switch I region; other site 469008012441 G2 box; other site 469008012442 G3 box; other site 469008012443 Switch II region; other site 469008012444 G4 box; other site 469008012445 G5 box; other site 469008012446 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 469008012447 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 469008012448 Antibiotic Binding Site [chemical binding]; other site 469008012449 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 469008012450 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 469008012451 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 469008012452 putative homodimer interface [polypeptide binding]; other site 469008012453 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 469008012454 heterodimer interface [polypeptide binding]; other site 469008012455 homodimer interface [polypeptide binding]; other site 469008012456 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 469008012457 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 469008012458 23S rRNA interface [nucleotide binding]; other site 469008012459 L7/L12 interface [polypeptide binding]; other site 469008012460 putative thiostrepton binding site; other site 469008012461 L25 interface [polypeptide binding]; other site 469008012462 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 469008012463 mRNA/rRNA interface [nucleotide binding]; other site 469008012464 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 469008012465 23S rRNA interface [nucleotide binding]; other site 469008012466 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 469008012467 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 469008012468 core dimer interface [polypeptide binding]; other site 469008012469 peripheral dimer interface [polypeptide binding]; other site 469008012470 L10 interface [polypeptide binding]; other site 469008012471 L11 interface [polypeptide binding]; other site 469008012472 putative EF-Tu interaction site [polypeptide binding]; other site 469008012473 putative EF-G interaction site [polypeptide binding]; other site 469008012474 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 469008012475 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 469008012476 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 469008012477 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 469008012478 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 469008012479 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 469008012480 RPB3 interaction site [polypeptide binding]; other site 469008012481 RPB1 interaction site [polypeptide binding]; other site 469008012482 RPB11 interaction site [polypeptide binding]; other site 469008012483 RPB10 interaction site [polypeptide binding]; other site 469008012484 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 469008012485 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 469008012486 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 469008012487 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 469008012488 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 469008012489 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 469008012490 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469008012491 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 469008012492 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469008012493 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 469008012494 DNA binding site [nucleotide binding] 469008012495 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 469008012496 stationary phase growth adaptation protein; Provisional; Region: PRK09717 469008012497 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 469008012498 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 469008012499 FeS/SAM binding site; other site 469008012500 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 469008012501 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 469008012502 ThiS interaction site; other site 469008012503 putative active site [active] 469008012504 tetramer interface [polypeptide binding]; other site 469008012505 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 469008012506 thiS-thiF/thiG interaction site; other site 469008012507 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 469008012508 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 469008012509 ATP binding site [chemical binding]; other site 469008012510 substrate interface [chemical binding]; other site 469008012511 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 469008012512 thiamine phosphate binding site [chemical binding]; other site 469008012513 active site 469008012514 pyrophosphate binding site [ion binding]; other site 469008012515 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 469008012516 ThiC-associated domain; Region: ThiC-associated; pfam13667 469008012517 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 469008012518 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 469008012519 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 469008012520 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 469008012521 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 469008012522 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 469008012523 putative NADH binding site [chemical binding]; other site 469008012524 putative active site [active] 469008012525 nudix motif; other site 469008012526 putative metal binding site [ion binding]; other site 469008012527 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 469008012528 substrate binding site [chemical binding]; other site 469008012529 active site 469008012530 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 469008012531 Active_site [active] 469008012532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 469008012533 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 469008012534 IHF dimer interface [polypeptide binding]; other site 469008012535 IHF - DNA interface [nucleotide binding]; other site 469008012536 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 469008012537 zinc resistance protein; Provisional; Region: zraP; PRK11546 469008012538 dimer interface [polypeptide binding]; other site 469008012539 sensor protein ZraS; Provisional; Region: PRK10364 469008012540 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 469008012541 dimer interface [polypeptide binding]; other site 469008012542 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 469008012543 ATP binding site [chemical binding]; other site 469008012544 Mg2+ binding site [ion binding]; other site 469008012545 G-X-G motif; other site 469008012546 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 469008012547 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 469008012548 active site 469008012549 phosphorylation site [posttranslational modification] 469008012550 intermolecular recognition site; other site 469008012551 dimerization interface [polypeptide binding]; other site 469008012552 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 469008012553 Walker A motif; other site 469008012554 ATP binding site [chemical binding]; other site 469008012555 Walker B motif; other site 469008012556 arginine finger; other site 469008012557 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469008012558 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 469008012559 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 469008012560 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 469008012561 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 469008012562 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 469008012563 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 469008012564 purine monophosphate binding site [chemical binding]; other site 469008012565 dimer interface [polypeptide binding]; other site 469008012566 putative catalytic residues [active] 469008012567 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 469008012568 potential protein location (ybl209 [Escherichia coli BL21(DE3)]) that overlaps RNA (5S ribosomal RNA) 469008012569 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469008012570 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008012571 Coenzyme A binding pocket [chemical binding]; other site 469008012572 homoserine O-succinyltransferase; Provisional; Region: PRK05368 469008012573 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 469008012574 proposed active site lysine [active] 469008012575 conserved cys residue [active] 469008012576 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 469008012577 malate synthase A; Region: malate_syn_A; TIGR01344 469008012578 active site 469008012579 isocitrate lyase; Provisional; Region: PRK15063 469008012580 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 469008012581 tetramer interface [polypeptide binding]; other site 469008012582 active site 469008012583 Mg2+/Mn2+ binding site [ion binding]; other site 469008012584 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 469008012585 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 469008012588 regulator of acetyl CoA synthetase, N-ter fragment 469008012589 transcriptional repressor IclR; Provisional; Region: PRK11569 469008012590 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 469008012591 Bacterial transcriptional regulator; Region: IclR; pfam01614 469008012592 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 469008012593 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 469008012594 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 469008012595 substrate binding pocket [chemical binding]; other site 469008012596 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 469008012597 B12 binding site [chemical binding]; other site 469008012598 cobalt ligand [ion binding]; other site 469008012599 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 469008012600 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 469008012601 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469008012602 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469008012603 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 469008012604 active site pocket [active] 469008012605 oxyanion hole [active] 469008012606 catalytic triad [active] 469008012607 active site nucleophile [active] 469008012608 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 469008012609 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 469008012610 RNA binding surface [nucleotide binding]; other site 469008012611 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 469008012612 probable active site [active] 469008012613 hypothetical protein; Provisional; Region: PRK10515 469008012614 aspartate kinase III; Validated; Region: PRK09084 469008012615 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 469008012616 nucleotide binding site [chemical binding]; other site 469008012617 putative catalytic residues [active] 469008012618 aspartate binding site [chemical binding]; other site 469008012619 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 469008012620 lysine allosteric regulatory site; other site 469008012621 dimer interface [polypeptide binding]; other site 469008012622 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 469008012623 dimer interface [polypeptide binding]; other site 469008012624 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 469008012625 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 469008012626 active site 469008012627 dimer interface [polypeptide binding]; other site 469008012628 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 469008012629 dimer interface [polypeptide binding]; other site 469008012630 active site 469008012631 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 469008012632 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 469008012633 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 469008012634 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 469008012635 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 469008012636 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 469008012637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012638 putative substrate translocation pore; other site 469008012639 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012640 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 469008012641 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 469008012642 dimer interface [polypeptide binding]; other site 469008012643 conserved gate region; other site 469008012644 putative PBP binding loops; other site 469008012645 ABC-ATPase subunit interface; other site 469008012646 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 469008012647 dimer interface [polypeptide binding]; other site 469008012648 conserved gate region; other site 469008012649 putative PBP binding loops; other site 469008012650 ABC-ATPase subunit interface; other site 469008012651 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 469008012652 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 469008012653 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 469008012654 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 469008012655 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 469008012656 Walker A/P-loop; other site 469008012657 ATP binding site [chemical binding]; other site 469008012658 Q-loop/lid; other site 469008012659 ABC transporter signature motif; other site 469008012660 Walker B; other site 469008012661 D-loop; other site 469008012662 H-loop/switch region; other site 469008012663 TOBE domain; Region: TOBE_2; pfam08402 469008012664 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 469008012665 trimer interface; other site 469008012666 sugar binding site [chemical binding]; other site 469008012667 maltose regulon periplasmic protein; Provisional; Region: PRK10564 469008012668 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 469008012669 SopA-like central domain; Region: SopA; pfam13981 469008012670 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 469008012671 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 469008012672 UbiA prenyltransferase family; Region: UbiA; pfam01040 469008012673 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 469008012674 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 469008012675 putative acyl-acceptor binding pocket; other site 469008012676 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 469008012677 LexA repressor; Validated; Region: PRK00215 469008012678 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 469008012679 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 469008012680 Catalytic site [active] 469008012681 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 469008012682 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 469008012683 hypothetical protein; Provisional; Region: PRK10428 469008012684 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469008012685 metal binding site 2 [ion binding]; metal-binding site 469008012686 putative DNA binding helix; other site 469008012687 metal binding site 1 [ion binding]; metal-binding site 469008012688 dimer interface [polypeptide binding]; other site 469008012689 structural Zn2+ binding site [ion binding]; other site 469008012690 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 469008012691 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 469008012692 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 469008012693 FMN binding site [chemical binding]; other site 469008012694 active site 469008012695 catalytic residues [active] 469008012696 substrate binding site [chemical binding]; other site 469008012697 phage shock protein G; Reviewed; Region: pspG; PRK09459 469008012698 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 469008012699 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 469008012700 NADP binding site [chemical binding]; other site 469008012701 dimer interface [polypeptide binding]; other site 469008012702 replicative DNA helicase; Provisional; Region: PRK08006 469008012703 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 469008012704 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 469008012705 Walker A motif; other site 469008012706 ATP binding site [chemical binding]; other site 469008012707 Walker B motif; other site 469008012708 DNA binding loops [nucleotide binding] 469008012709 alanine racemase; Reviewed; Region: alr; PRK00053 469008012710 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 469008012711 active site 469008012712 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469008012713 substrate binding site [chemical binding]; other site 469008012714 catalytic residues [active] 469008012715 dimer interface [polypeptide binding]; other site 469008012716 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 469008012717 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 469008012718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012719 homodimer interface [polypeptide binding]; other site 469008012720 catalytic residue [active] 469008012721 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 469008012722 motif II; other site 469008012723 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 469008012724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 469008012725 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 469008012726 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469008012727 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469008012728 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 469008012729 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469008012730 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 469008012731 dimer interface [polypeptide binding]; other site 469008012732 ssDNA binding site [nucleotide binding]; other site 469008012733 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008012734 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 469008012735 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 469008012736 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 469008012737 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 469008012738 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 469008012739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012740 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 469008012741 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 469008012742 DNA binding residues [nucleotide binding] 469008012743 dimer interface [polypeptide binding]; other site 469008012744 [2Fe-2S] cluster binding site [ion binding]; other site 469008012745 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469008012746 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 469008012747 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469008012749 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 469008012750 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 469008012751 Na binding site [ion binding]; other site 469008012752 Predicted membrane protein [Function unknown]; Region: COG3162 469008012753 acetyl-CoA synthetase; Provisional; Region: PRK00174 469008012754 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 469008012755 active site 469008012756 CoA binding site [chemical binding]; other site 469008012757 acyl-activating enzyme (AAE) consensus motif; other site 469008012758 AMP binding site [chemical binding]; other site 469008012759 acetate binding site [chemical binding]; other site 469008012760 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 469008012761 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 469008012762 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 469008012763 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 469008012764 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 469008012765 heme lyase subunit NrfE; Provisional; Region: PRK10369 469008012766 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 469008012767 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 469008012768 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 469008012769 binding surface 469008012770 TPR motif; other site 469008012771 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 469008012772 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469008012773 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 469008012774 Sel1-like repeats; Region: SEL1; smart00671 469008012775 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 469008012776 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 469008012777 [4Fe-4S] binding site [ion binding]; other site 469008012778 molybdopterin cofactor binding site; other site 469008012779 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 469008012780 molybdopterin cofactor binding site; other site 469008012781 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 469008012782 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 469008012783 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 469008012784 multidrug resistance protein MdtN; Provisional; Region: PRK10476 469008012785 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469008012786 HlyD family secretion protein; Region: HlyD_3; pfam13437 469008012787 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 469008012788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469008012789 D-allose kinase; Provisional; Region: PRK09698 469008012790 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469008012791 nucleotide binding site [chemical binding]; other site 469008012792 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469008012793 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 469008012794 substrate binding site [chemical binding]; other site 469008012795 hexamer interface [polypeptide binding]; other site 469008012796 metal binding site [ion binding]; metal-binding site 469008012797 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008012798 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 469008012799 TM-ABC transporter signature motif; other site 469008012800 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 469008012801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008012802 Walker A/P-loop; other site 469008012803 ATP binding site [chemical binding]; other site 469008012804 Q-loop/lid; other site 469008012805 ABC transporter signature motif; other site 469008012806 Walker B; other site 469008012807 D-loop; other site 469008012808 H-loop/switch region; other site 469008012809 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008012810 D-allose transporter subunit; Provisional; Region: PRK09701 469008012811 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 469008012812 ligand binding site [chemical binding]; other site 469008012813 dimerization interface [polypeptide binding]; other site 469008012814 zinc binding site [ion binding]; other site 469008012815 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 469008012816 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 469008012817 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 469008012818 putative active site [active] 469008012819 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 469008012820 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 469008012821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008012822 Coenzyme A binding pocket [chemical binding]; other site 469008012823 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 469008012824 AAA domain; Region: AAA_18; pfam13238 469008012825 active site 469008012826 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 469008012827 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 469008012828 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 469008012829 active site 469008012830 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 469008012831 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469008012832 Walker A/P-loop; other site 469008012833 ATP binding site [chemical binding]; other site 469008012834 Q-loop/lid; other site 469008012835 ABC transporter signature motif; other site 469008012836 Walker B; other site 469008012837 D-loop; other site 469008012838 H-loop/switch region; other site 469008012839 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 469008012840 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469008012841 Walker A/P-loop; other site 469008012842 ATP binding site [chemical binding]; other site 469008012843 Q-loop/lid; other site 469008012844 ABC transporter signature motif; other site 469008012845 Walker B; other site 469008012846 D-loop; other site 469008012847 H-loop/switch region; other site 469008012848 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469008012849 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 469008012850 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 469008012851 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 469008012852 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 469008012853 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 469008012854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008012855 DNA-binding site [nucleotide binding]; DNA binding site 469008012856 UTRA domain; Region: UTRA; pfam07702 469008012857 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 469008012858 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 469008012859 dimer interface [polypeptide binding]; other site 469008012860 conserved gate region; other site 469008012861 putative PBP binding loops; other site 469008012862 ABC-ATPase subunit interface; other site 469008012863 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 469008012864 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 469008012865 substrate binding pocket [chemical binding]; other site 469008012866 membrane-bound complex binding site; other site 469008012867 hinge residues; other site 469008012868 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 469008012869 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 469008012870 Walker A/P-loop; other site 469008012871 ATP binding site [chemical binding]; other site 469008012872 Q-loop/lid; other site 469008012873 ABC transporter signature motif; other site 469008012874 Walker B; other site 469008012875 D-loop; other site 469008012876 H-loop/switch region; other site 469008012877 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 469008012878 dimer interface [polypeptide binding]; other site 469008012879 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469008012880 hypothetical protein; Provisional; Region: PRK10220 469008012881 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 469008012882 PhnA protein; Region: PhnA; pfam03831 469008012883 hypothetical protein; Provisional; Region: PRK09866 469008012884 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 469008012885 G1 box; other site 469008012886 GTP/Mg2+ binding site [chemical binding]; other site 469008012887 G2 box; other site 469008012888 Switch I region; other site 469008012889 G3 box; other site 469008012890 Switch II region; other site 469008012891 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469008012892 G2 box; other site 469008012893 Switch I region; other site 469008012894 G3 box; other site 469008012895 Switch II region; other site 469008012896 G4 box; other site 469008012897 G5 box; other site 469008012898 YjcZ-like protein; Region: YjcZ; pfam13990 469008012899 proline/glycine betaine transporter; Provisional; Region: PRK10642 469008012900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012901 putative substrate translocation pore; other site 469008012902 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 469008012903 sensor protein BasS/PmrB; Provisional; Region: PRK10755 469008012904 HAMP domain; Region: HAMP; pfam00672 469008012905 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 469008012906 dimer interface [polypeptide binding]; other site 469008012907 phosphorylation site [posttranslational modification] 469008012908 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 469008012909 ATP binding site [chemical binding]; other site 469008012910 Mg2+ binding site [ion binding]; other site 469008012911 G-X-G motif; other site 469008012912 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 469008012913 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 469008012914 active site 469008012915 phosphorylation site [posttranslational modification] 469008012916 intermolecular recognition site; other site 469008012917 dimerization interface [polypeptide binding]; other site 469008012918 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 469008012919 DNA binding site [nucleotide binding] 469008012920 putative metal dependent hydrolase; Provisional; Region: PRK11598 469008012921 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 469008012922 Sulfatase; Region: Sulfatase; pfam00884 469008012923 arginine:agmatin antiporter; Provisional; Region: PRK10644 469008012924 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469008012925 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012926 arginine decarboxylase; Provisional; Region: PRK15029 469008012927 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008012928 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 469008012929 homodimer interface [polypeptide binding]; other site 469008012930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012931 catalytic residue [active] 469008012932 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008012933 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 469008012934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012935 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008012936 alpha-galactosidase; Provisional; Region: PRK15076 469008012937 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 469008012938 NAD binding site [chemical binding]; other site 469008012939 sugar binding site [chemical binding]; other site 469008012940 divalent metal binding site [ion binding]; other site 469008012941 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008012942 dimer interface [polypeptide binding]; other site 469008012943 melibiose:sodium symporter; Provisional; Region: PRK10429 469008012944 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 469008012945 hypothetical protein; Provisional; Region: PRK09867 469008012946 fumarate hydratase; Provisional; Region: PRK15389 469008012947 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 469008012948 Fumarase C-terminus; Region: Fumerase_C; pfam05683 469008012949 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 469008012950 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 469008012951 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 469008012952 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 469008012953 active site 469008012954 phosphorylation site [posttranslational modification] 469008012955 intermolecular recognition site; other site 469008012956 dimerization interface [polypeptide binding]; other site 469008012957 Transcriptional regulator; Region: CitT; pfam12431 469008012959 Uncharacterized conserved protein [Function unknown]; Region: COG3592 469008012960 Predicted acetyltransferase [General function prediction only]; Region: COG2388 469008012961 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 469008012962 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 469008012963 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 469008012964 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 469008012965 dimer interface [polypeptide binding]; other site 469008012966 putative anticodon binding site; other site 469008012967 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 469008012968 motif 1; other site 469008012969 active site 469008012970 motif 2; other site 469008012971 motif 3; other site 469008012972 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 469008012973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008012974 putative substrate translocation pore; other site 469008012975 POT family; Region: PTR2; pfam00854 469008012976 lysine decarboxylase CadA; Provisional; Region: PRK15400 469008012977 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 469008012978 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 469008012979 homodimer interface [polypeptide binding]; other site 469008012980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469008012981 catalytic residue [active] 469008012982 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469008012983 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 469008012984 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 469008012985 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 469008012986 DNA binding site [nucleotide binding] 469008012987 putative transcriptional regulator; Provisional; Region: PRK11640 469008012988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008012989 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 469008012990 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 469008012991 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 469008012992 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 469008012993 DsbD alpha interface [polypeptide binding]; other site 469008012994 catalytic residues [active] 469008012995 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 469008012996 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 469008012997 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 469008012998 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 469008012999 Aspartase; Region: Aspartase; cd01357 469008013000 active sites [active] 469008013001 tetramer interface [polypeptide binding]; other site 469008013002 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 469008013003 putative transporter; Provisional; Region: PRK11021 469008013004 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 469008013005 oligomerisation interface [polypeptide binding]; other site 469008013006 mobile loop; other site 469008013007 roof hairpin; other site 469008013008 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 469008013009 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 469008013010 ring oligomerisation interface [polypeptide binding]; other site 469008013011 ATP/Mg binding site [chemical binding]; other site 469008013012 stacking interactions; other site 469008013013 hinge regions; other site 469008013014 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 469008013015 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 469008013016 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 469008013017 FeS/SAM binding site; other site 469008013018 elongation factor P; Validated; Region: PRK00529 469008013019 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469008013020 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 469008013021 RNA binding site [nucleotide binding]; other site 469008013022 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 469008013023 RNA binding site [nucleotide binding]; other site 469008013024 entericidin A; Provisional; Region: PRK09810 469008013025 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 469008013026 multidrug efflux system protein; Provisional; Region: PRK11431 469008013027 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 469008013028 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 469008013029 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 469008013030 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 469008013031 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 469008013032 Iron-sulfur protein interface; other site 469008013033 proximal quinone binding site [chemical binding]; other site 469008013034 C-subunit interface; other site 469008013035 distal quinone binding site; other site 469008013036 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 469008013037 D-subunit interface [polypeptide binding]; other site 469008013038 Iron-sulfur protein interface; other site 469008013039 proximal quinone binding site [chemical binding]; other site 469008013040 distal quinone binding site [chemical binding]; other site 469008013041 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 469008013042 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 469008013043 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 469008013044 L-aspartate oxidase; Provisional; Region: PRK06175 469008013045 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 469008013046 poxB regulator PoxA; Provisional; Region: PRK09350 469008013047 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 469008013048 motif 1; other site 469008013049 dimer interface [polypeptide binding]; other site 469008013050 active site 469008013051 motif 2; other site 469008013052 motif 3; other site 469008013053 inner membrane transporter YjeM; Provisional; Region: PRK15238 469008013054 putative mechanosensitive channel protein; Provisional; Region: PRK10929 469008013055 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 469008013056 DNA-binding site [nucleotide binding]; DNA binding site 469008013057 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 469008013058 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469008013059 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 469008013060 GTPase RsgA; Reviewed; Region: PRK12288 469008013061 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 469008013062 RNA binding site [nucleotide binding]; other site 469008013063 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 469008013064 GTPase/Zn-binding domain interface [polypeptide binding]; other site 469008013065 GTP/Mg2+ binding site [chemical binding]; other site 469008013066 G4 box; other site 469008013067 G5 box; other site 469008013068 G1 box; other site 469008013069 Switch I region; other site 469008013070 G2 box; other site 469008013071 G3 box; other site 469008013072 Switch II region; other site 469008013073 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 469008013074 catalytic site [active] 469008013075 putative active site [active] 469008013076 putative substrate binding site [chemical binding]; other site 469008013077 dimer interface [polypeptide binding]; other site 469008013078 epoxyqueuosine reductase; Region: TIGR00276 469008013079 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 469008013080 putative carbohydrate kinase; Provisional; Region: PRK10565 469008013081 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 469008013082 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 469008013083 putative substrate binding site [chemical binding]; other site 469008013084 putative ATP binding site [chemical binding]; other site 469008013085 ADP-binding protein; Provisional; Region: PRK10646 469008013086 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 469008013087 AMIN domain; Region: AMIN; pfam11741 469008013088 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 469008013089 active site 469008013090 metal binding site [ion binding]; metal-binding site 469008013091 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 469008013092 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 469008013093 ATP binding site [chemical binding]; other site 469008013094 Mg2+ binding site [ion binding]; other site 469008013095 G-X-G motif; other site 469008013096 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 469008013097 ATP binding site [chemical binding]; other site 469008013098 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 469008013099 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 469008013100 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 469008013101 bacterial Hfq-like; Region: Hfq; cd01716 469008013102 hexamer interface [polypeptide binding]; other site 469008013103 Sm1 motif; other site 469008013104 RNA binding site [nucleotide binding]; other site 469008013105 Sm2 motif; other site 469008013106 GTPase HflX; Provisional; Region: PRK11058 469008013107 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 469008013108 HflX GTPase family; Region: HflX; cd01878 469008013109 G1 box; other site 469008013110 GTP/Mg2+ binding site [chemical binding]; other site 469008013111 Switch I region; other site 469008013112 G2 box; other site 469008013113 G3 box; other site 469008013114 Switch II region; other site 469008013115 G4 box; other site 469008013116 G5 box; other site 469008013117 FtsH protease regulator HflK; Provisional; Region: PRK10930 469008013118 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 469008013119 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 469008013120 FtsH protease regulator HflC; Provisional; Region: PRK11029 469008013121 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 469008013122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 469008013123 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 469008013124 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 469008013125 GDP-binding site [chemical binding]; other site 469008013126 ACT binding site; other site 469008013127 IMP binding site; other site 469008013128 Predicted transcriptional regulator [Transcription]; Region: COG1959 469008013129 transcriptional repressor NsrR; Provisional; Region: PRK11014 469008013130 exoribonuclease R; Provisional; Region: PRK11642 469008013131 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 469008013132 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469008013133 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 469008013134 RNB domain; Region: RNB; pfam00773 469008013135 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 469008013136 RNA binding site [nucleotide binding]; other site 469008013137 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 469008013138 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 469008013139 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469008013140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 469008013141 PspA/IM30 family; Region: PspA_IM30; pfam04012 469008013142 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 469008013143 Predicted membrane protein [Function unknown]; Region: COG3766 469008013144 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 469008013145 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 469008013146 Predicted integral membrane protein [Function unknown]; Region: COG5463 469008013147 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 469008013148 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 469008013149 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 469008013150 FAD binding site [chemical binding]; other site 469008013151 substrate binding site [chemical binding]; other site 469008013152 catalytic residues [active] 469008013153 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008013154 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 469008013155 esterase; Provisional; Region: PRK10566 469008013156 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469008013157 transcriptional repressor UlaR; Provisional; Region: PRK13509 469008013158 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008013159 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008013160 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 469008013161 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469008013162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 469008013163 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 469008013164 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 469008013165 active site 469008013166 P-loop; other site 469008013167 phosphorylation site [posttranslational modification] 469008013168 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 469008013169 active site 469008013170 phosphorylation site [posttranslational modification] 469008013171 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 469008013172 active site 469008013173 dimer interface [polypeptide binding]; other site 469008013174 magnesium binding site [ion binding]; other site 469008013175 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 469008013176 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 469008013177 AP (apurinic/apyrimidinic) site pocket; other site 469008013178 DNA interaction; other site 469008013179 Metal-binding active site; metal-binding site 469008013180 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 469008013181 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 469008013182 intersubunit interface [polypeptide binding]; other site 469008013183 active site 469008013184 Zn2+ binding site [ion binding]; other site 469008013185 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 469008013186 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 469008013187 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 469008013188 dimer interface [polypeptide binding]; other site 469008013189 ssDNA binding site [nucleotide binding]; other site 469008013190 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469008013191 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 469008013192 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 469008013193 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 469008013194 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 469008013195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013196 D-galactonate transporter; Region: 2A0114; TIGR00893 469008013197 putative substrate translocation pore; other site 469008013198 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 469008013199 L-aspartate oxidase; Provisional; Region: PRK06175 469008013200 L-aspartate oxidase; Provisional; Region: PRK06175 469008013201 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 469008013202 Coenzyme A transferase; Region: CoA_trans; smart00882 469008013203 Coenzyme A transferase; Region: CoA_trans; cl17247 469008013204 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 469008013205 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 469008013206 substrate binding site [chemical binding]; other site 469008013207 oxyanion hole (OAH) forming residues; other site 469008013208 trimer interface [polypeptide binding]; other site 469008013209 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 469008013210 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 469008013211 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 1, classical (c) SDR; Region: BKR_1_SDR_c; cd05337 469008013212 putative NAD(P) binding site [chemical binding]; other site 469008013213 active site 469008013214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008013215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008013216 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 469008013217 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 469008013218 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 469008013219 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 469008013220 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 469008013221 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469008013222 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 469008013223 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 469008013224 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 469008013225 Hemerythrin-like domain; Region: Hr-like; cd12108 469008013226 Fe binding site [ion binding]; other site 469008013227 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469008013228 EamA-like transporter family; Region: EamA; pfam00892 469008013229 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 469008013230 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 469008013231 NADP binding site [chemical binding]; other site 469008013232 Predicted transcriptional regulators [Transcription]; Region: COG1733 469008013233 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469008013234 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 469008013235 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 469008013236 active site 469008013237 metal binding site [ion binding]; metal-binding site 469008013238 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 469008013239 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 469008013240 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 469008013241 active site 469008013242 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 469008013243 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 469008013244 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469008013245 Domain of unknown function DUF21; Region: DUF21; pfam01595 469008013246 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 469008013247 Transporter associated domain; Region: CorC_HlyC; smart01091 469008013248 methionine sulfoxide reductase A; Provisional; Region: PRK00058 469008013249 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 469008013250 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469008013251 Surface antigen; Region: Bac_surface_Ag; pfam01103 469008013252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 469008013253 Family of unknown function (DUF490); Region: DUF490; pfam04357 469008013254 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 469008013255 putative active site pocket [active] 469008013256 dimerization interface [polypeptide binding]; other site 469008013257 putative catalytic residue [active] 469008013259 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 469008013260 dimer interface [polypeptide binding]; other site 469008013261 substrate binding site [chemical binding]; other site 469008013262 metal binding sites [ion binding]; metal-binding site 469008013263 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 469008013264 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 469008013265 putative ligand binding site [chemical binding]; other site 469008013266 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469008013267 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 469008013268 Walker A/P-loop; other site 469008013269 ATP binding site [chemical binding]; other site 469008013270 Q-loop/lid; other site 469008013271 ABC transporter signature motif; other site 469008013272 Walker B; other site 469008013273 D-loop; other site 469008013274 H-loop/switch region; other site 469008013275 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469008013276 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008013277 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 469008013278 TM-ABC transporter signature motif; other site 469008013279 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469008013280 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 469008013281 TM-ABC transporter signature motif; other site 469008013282 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 469008013283 AMP binding site [chemical binding]; other site 469008013284 metal binding site [ion binding]; metal-binding site 469008013285 active site 469008013286 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 469008013287 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469008013288 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469008013289 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469008013290 hypothetical protein; Provisional; Region: PRK05255 469008013291 peptidase PmbA; Provisional; Region: PRK11040 469008013292 Cytochrome b562; Region: Cytochrom_B562; cl01546 469008013293 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 469008013294 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 469008013295 FeS/SAM binding site; other site 469008013296 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 469008013297 ATP cone domain; Region: ATP-cone; pfam03477 469008013298 Class III ribonucleotide reductase; Region: RNR_III; cd01675 469008013299 effector binding site; other site 469008013300 active site 469008013301 Zn binding site [ion binding]; other site 469008013302 glycine loop; other site 469008013303 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 469008013304 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 469008013305 Ca binding site [ion binding]; other site 469008013306 active site 469008013307 catalytic site [active] 469008013308 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 469008013309 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 469008013310 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 469008013311 active site turn [active] 469008013312 phosphorylation site [posttranslational modification] 469008013313 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469008013314 trehalose repressor; Provisional; Region: treR; PRK09492 469008013315 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008013316 DNA binding site [nucleotide binding] 469008013317 domain linker motif; other site 469008013318 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 469008013319 dimerization interface [polypeptide binding]; other site 469008013320 ligand binding site [chemical binding]; other site 469008013321 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 469008013322 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 469008013323 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469008013324 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 469008013325 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 469008013326 motif II; other site 469008013327 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 469008013328 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 469008013329 homotrimer interaction site [polypeptide binding]; other site 469008013330 putative active site [active] 469008013331 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 469008013332 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 469008013333 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 469008013334 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 469008013335 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008013336 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008013337 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 469008013338 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 469008013339 homotrimer interaction site [polypeptide binding]; other site 469008013340 putative active site [active] 469008013341 oxidoreductase; Provisional; Region: PRK12742 469008013342 classical (c) SDRs; Region: SDR_c; cd05233 469008013343 NAD(P) binding site [chemical binding]; other site 469008013344 active site 469008013345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469008013346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469008013347 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 469008013348 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 469008013349 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469008013350 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469008013351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 469008013352 RNase E inhibitor protein; Provisional; Region: PRK11191 469008013353 Predicted membrane protein [Function unknown]; Region: COG4269 469008013354 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 469008013355 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469008013356 HIGH motif; other site 469008013357 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469008013358 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469008013359 active site 469008013360 KMSKS motif; other site 469008013361 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 469008013362 tRNA binding surface [nucleotide binding]; other site 469008013363 anticodon binding site; other site 469008013364 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 469008013365 DNA polymerase III subunit chi; Validated; Region: PRK05728 469008013366 multifunctional aminopeptidase A; Provisional; Region: PRK00913 469008013367 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 469008013368 interface (dimer of trimers) [polypeptide binding]; other site 469008013369 Substrate-binding/catalytic site; other site 469008013370 Zn-binding sites [ion binding]; other site 469008013371 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 469008013372 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008013373 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 469008013374 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469008013375 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 469008013376 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 469008013377 Walker A motif; other site 469008013378 ATP binding site [chemical binding]; other site 469008013379 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 469008013380 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469008013381 DNA binding site [nucleotide binding] 469008013382 domain linker motif; other site 469008013383 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 469008013384 putative dimerization interface [polypeptide binding]; other site 469008013385 putative ligand binding site [chemical binding]; other site 469008013386 fructuronate transporter; Provisional; Region: PRK10034; cl15264 469008013387 gluconate transporter; Region: gntP; TIGR00791 469008013388 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 469008013389 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 469008013390 NADP binding site [chemical binding]; other site 469008013391 homodimer interface [polypeptide binding]; other site 469008013392 active site 469008013393 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 469008013394 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 469008013395 putative NAD(P) binding site [chemical binding]; other site 469008013396 catalytic Zn binding site [ion binding]; other site 469008013397 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 469008013398 ATP-binding site [chemical binding]; other site 469008013399 Gluconate-6-phosphate binding site [chemical binding]; other site 469008013400 Shikimate kinase; Region: SKI; pfam01202 469008013401 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 469008013402 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 469008013403 putative NAD(P) binding site [chemical binding]; other site 469008013404 putative substrate binding site [chemical binding]; other site 469008013405 catalytic Zn binding site [ion binding]; other site 469008013406 structural Zn binding site [ion binding]; other site 469008013407 dimer interface [polypeptide binding]; other site 469008013408 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 469008013409 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469008013410 active site 469008013411 Int/Topo IB signature motif; other site 469008013412 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 469008013413 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 469008013414 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 469008013415 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469008013416 putative sialic acid transporter; Provisional; Region: PRK12307 469008013417 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013418 putative substrate translocation pore; other site 469008013419 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 469008013420 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 469008013421 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 469008013422 D-galactonate transporter; Region: 2A0114; TIGR00893 469008013423 ribosomal slippage 469008013424 putative transposase OrfB; Reviewed; Region: PHA02517 469008013425 HTH-like domain; Region: HTH_21; pfam13276 469008013426 Integrase core domain; Region: rve; pfam00665 469008013427 Integrase core domain; Region: rve_3; pfam13683 469008013428 BCCT family transporter; Region: BCCT; cl00569 469008013429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008013430 Transposase; Region: HTH_Tnp_1; pfam01527 469008013431 putative transposase OrfB; Reviewed; Region: PHA02517 469008013432 Integrase core domain; Region: rve; pfam00665 469008013433 Integrase core domain; Region: rve_3; pfam13683 469008013434 Homeodomain-like domain; Region: HTH_23; cl17451 469008013435 putative transposase OrfB; Reviewed; Region: PHA02517 469008013436 Integrase core domain; Region: rve; pfam00665 469008013437 Integrase core domain; Region: rve_3; pfam13683 469008013438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469008013439 Transposase; Region: HTH_Tnp_1; pfam01527 469008013440 IS911 orfB homolog, C-ter fragment 469008013441 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 469008013442 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 469008013443 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469008013444 Walker A/P-loop; other site 469008013445 ATP binding site [chemical binding]; other site 469008013446 Q-loop/lid; other site 469008013447 ABC transporter signature motif; other site 469008013448 Walker B; other site 469008013449 D-loop; other site 469008013450 H-loop/switch region; other site 469008013451 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008013452 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 469008013453 ABC-ATPase subunit interface; other site 469008013454 dimer interface [polypeptide binding]; other site 469008013455 putative PBP binding regions; other site 469008013456 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469008013457 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 469008013458 dimer interface [polypeptide binding]; other site 469008013459 ABC-ATPase subunit interface; other site 469008013460 putative PBP binding regions; other site 469008013461 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 469008013462 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 469008013463 siderophore binding site; other site 469008013464 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 469008013465 Secretin and TonB N terminus short domain; Region: STN; smart00965 469008013466 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 469008013467 N-terminal plug; other site 469008013468 ligand-binding site [chemical binding]; other site 469008013469 fec operon regulator FecR; Reviewed; Region: PRK09774 469008013470 FecR protein; Region: FecR; pfam04773 469008013471 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 469008013472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469008013473 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 469008013474 DNA binding residues [nucleotide binding] 469008013476 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013477 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013478 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013479 IS1F protein InsB gene homolog 469008013480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013481 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013482 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013483 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013484 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013486 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013487 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013488 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469008013489 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 469008013490 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469008013491 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469008013492 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 469008013493 substrate binding site [chemical binding]; other site 469008013494 hexamer interface [polypeptide binding]; other site 469008013495 metal binding site [ion binding]; metal-binding site 469008013496 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 469008013497 active site 469008013498 phosphorylation site [posttranslational modification] 469008013499 membrane complex biogenesis protein, BtpA family; Region: thylakoid_BtpA; TIGR00259 469008013500 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 469008013501 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 469008013502 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 469008013503 active site 469008013504 P-loop; other site 469008013505 phosphorylation site [posttranslational modification] 469008013506 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 469008013507 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 469008013508 oligomer interface [polypeptide binding]; other site 469008013509 active site 469008013510 metal binding site [ion binding]; metal-binding site 469008013511 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469008013512 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 469008013513 S-adenosylmethionine binding site [chemical binding]; other site 469008013514 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 469008013515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008013516 Coenzyme A binding pocket [chemical binding]; other site 469008013517 hypothetical protein; Provisional; Region: PRK13687 469008013519 Domain of unknown function (DUF303); Region: DUF303; pfam03629 469008013520 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 469008013521 Kelch motif; Region: Kelch_1; pfam01344 469008013522 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 469008013523 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 469008013524 active site 469008013525 Int/Topo IB signature motif; other site 469008013526 DNA binding site [nucleotide binding] 469008013527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013528 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013529 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013530 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013531 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013533 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013534 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013536 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 469008013537 Int/Topo IB signature motif; other site 469008013538 Fimbrial protein; Region: Fimbrial; cl01416 469008013539 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013540 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 469008013541 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 469008013542 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 469008013543 outer membrane usher protein; Provisional; Region: PRK15193 469008013544 PapC N-terminal domain; Region: PapC_N; pfam13954 469008013545 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 469008013546 PapC C-terminal domain; Region: PapC_C; pfam13953 469008013547 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013548 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 469008013549 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 469008013550 mannosyl binding site [chemical binding]; other site 469008013551 Fimbrial protein; Region: Fimbrial; pfam00419 469008013552 fructuronate transporter; Provisional; Region: PRK10034 469008013553 gluconate transporter; Region: gntP; TIGR00791 469008013554 mannonate dehydratase; Region: uxuA; TIGR00695 469008013555 mannonate dehydratase; Provisional; Region: PRK03906 469008013556 D-mannonate oxidoreductase; Provisional; Region: PRK15037 469008013557 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 469008013558 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 469008013559 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 469008013560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469008013561 DNA-binding site [nucleotide binding]; DNA binding site 469008013562 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469008013563 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 469008013564 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 469008013565 cell density-dependent motility repressor; Provisional; Region: PRK10082 469008013566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469008013567 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 469008013568 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 469008013569 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 469008013570 dimer interface [polypeptide binding]; other site 469008013571 active site 469008013572 hypothetical protein; Provisional; Region: PRK10519 469008013573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 469008013574 Nucleoside recognition; Region: Gate; pfam07670 469008013575 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 469008013576 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 469008013577 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 469008013578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 469008013579 SdiA-regulated; Region: SdiA-regulated; cd09971 469008013580 putative active site [active] 469008013581 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469008013582 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 469008013583 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469008013584 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 469008013585 Predicted membrane protein [Function unknown]; Region: COG2733 469008013586 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 469008013587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013588 putative substrate translocation pore; other site 469008013589 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008013590 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 469008013591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013592 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013593 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013594 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013596 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013597 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013598 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013599 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 469008013600 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 469008013601 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 469008013602 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 469008013603 Walker A motif; other site 469008013604 ATP binding site [chemical binding]; other site 469008013605 Walker B motif; other site 469008013606 arginine finger; other site 469008013607 endoribonuclease SymE; Provisional; Region: PRK13605 469008013609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013610 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013611 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013612 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013613 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 469008013614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 469008013615 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 469008013616 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 469008013618 HsdM N-terminal domain; Region: HsdM_N; pfam12161 469008013619 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 469008013620 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469008013621 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 469008013622 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 469008013623 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 469008013624 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 469008013625 ATP binding site [chemical binding]; other site 469008013626 putative Mg++ binding site [ion binding]; other site 469008013627 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 469008013628 Mrr N-terminal domain; Region: Mrr_N; pfam14338 469008013629 Restriction endonuclease; Region: Mrr_cat; pfam04471 469008013630 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 469008013631 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 469008013632 P-loop, Walker A motif; other site 469008013633 Base recognition motif; other site 469008013634 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 469008013635 Uncharacterized small protein [Function unknown]; Region: COG2879 469008013636 carbon starvation protein A; Provisional; Region: PRK15015 469008013637 Carbon starvation protein CstA; Region: CstA; pfam02554 469008013638 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 469008013639 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 469008013640 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 469008013641 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 469008013642 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 469008013643 Cupin domain; Region: Cupin_2; pfam07883 469008013644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008013645 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013646 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 469008013647 putative substrate translocation pore; other site 469008013648 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 469008013649 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 469008013650 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 469008013651 putative substrate binding pocket [chemical binding]; other site 469008013652 trimer interface [polypeptide binding]; other site 469008013653 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 469008013654 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 469008013655 putative active site [active] 469008013656 putative metal binding site [ion binding]; other site 469008013657 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 469008013658 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 469008013659 NAD binding site [chemical binding]; other site 469008013660 catalytic residues [active] 469008013661 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 469008013662 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 469008013663 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 469008013664 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 469008013665 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469008013666 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 469008013667 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 469008013668 dimer interface [polypeptide binding]; other site 469008013669 ligand binding site [chemical binding]; other site 469008013670 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 469008013671 dimerization interface [polypeptide binding]; other site 469008013672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 469008013673 dimer interface [polypeptide binding]; other site 469008013674 putative CheW interface [polypeptide binding]; other site 469008013675 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 469008013676 D-galactonate transporter; Region: 2A0114; TIGR00893 469008013677 putative substrate translocation pore; other site 469008013679 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 469008013680 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 469008013681 putative NAD(P) binding site [chemical binding]; other site 469008013682 catalytic Zn binding site [ion binding]; other site 469008013683 structural Zn binding site [ion binding]; other site 469008013684 phosphoglycerol transferase I; Provisional; Region: PRK03776 469008013685 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 469008013686 hypothetical protein; Provisional; Region: PRK11667 469008013687 DNA replication protein DnaC; Validated; Region: PRK07952 469008013688 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 469008013689 Walker A motif; other site 469008013690 ATP binding site [chemical binding]; other site 469008013691 Walker B motif; other site 469008013692 primosomal protein DnaI; Provisional; Region: PRK02854 469008013693 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 469008013694 Uncharacterized conserved protein [Function unknown]; Region: COG2966 469008013695 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 469008013696 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 469008013697 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 469008013698 DNA binding residues [nucleotide binding] 469008013699 dimerization interface [polypeptide binding]; other site 469008013700 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 469008013701 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 469008013702 DNA binding residues [nucleotide binding] 469008013703 dimerization interface [polypeptide binding]; other site 469008013704 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 469008013705 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 469008013706 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 469008013707 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 469008013708 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 469008013709 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 469008013710 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 469008013711 S-adenosylmethionine binding site [chemical binding]; other site 469008013712 DNA polymerase III subunit psi; Validated; Region: PRK06856 469008013713 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 469008013714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469008013715 Coenzyme A binding pocket [chemical binding]; other site 469008013716 dUMP phosphatase; Provisional; Region: PRK09449 469008013717 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 469008013718 motif II; other site 469008013719 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 469008013720 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 469008013721 G1 box; other site 469008013722 putative GEF interaction site [polypeptide binding]; other site 469008013723 GTP/Mg2+ binding site [chemical binding]; other site 469008013724 Switch I region; other site 469008013725 G2 box; other site 469008013726 G3 box; other site 469008013727 Switch II region; other site 469008013728 G4 box; other site 469008013729 G5 box; other site 469008013730 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 469008013731 periplasmic protein; Provisional; Region: PRK10568 469008013732 BON domain; Region: BON; pfam04972 469008013733 BON domain; Region: BON; pfam04972 469008013734 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 469008013735 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 469008013736 active site 469008013737 nucleophile elbow; other site 469008013738 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469008013739 active site 469008013740 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 469008013741 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 469008013742 FeS/SAM binding site; other site 469008013743 hypothetical protein; Provisional; Region: PRK10977 469008013744 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 469008013745 intersubunit interface [polypeptide binding]; other site 469008013746 active site 469008013747 catalytic residue [active] 469008013748 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 469008013749 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 469008013750 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 469008013751 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 469008013752 phosphopentomutase; Provisional; Region: PRK05362 469008013753 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 469008013754 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 469008013755 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 469008013756 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 469008013757 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 469008013758 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 469008013759 hypothetical protein; Provisional; Region: PRK11246 469008013760 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 469008013761 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 469008013762 motif II; other site 469008013763 DNA repair protein RadA; Region: sms; TIGR00416 469008013764 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 469008013765 Walker A motif/ATP binding site; other site 469008013766 ATP binding site [chemical binding]; other site 469008013767 Walker B motif; other site 469008013768 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469008013769 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 469008013770 non-specific DNA binding site [nucleotide binding]; other site 469008013771 salt bridge; other site 469008013772 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 469008013773 sequence-specific DNA binding site [nucleotide binding]; other site 469008013774 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 469008013775 active site 469008013776 (T/H)XGH motif; other site 469008013777 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 469008013778 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 469008013779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469008013780 Walker A/P-loop; other site 469008013781 ATP binding site [chemical binding]; other site 469008013782 Q-loop/lid; other site 469008013783 ABC transporter signature motif; other site 469008013784 Walker B; other site 469008013785 D-loop; other site 469008013786 H-loop/switch region; other site 469008013787 ABC transporter; Region: ABC_tran_2; pfam12848 469008013788 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469008013789 lytic murein transglycosylase; Provisional; Region: PRK11619 469008013790 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 469008013791 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469008013792 catalytic residue [active] 469008013793 Trp operon repressor; Provisional; Region: PRK01381 469008013794 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 469008013795 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 469008013796 catalytic core [active] 469008013797 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 469008013798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469008013799 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 469008013800 hypothetical protein; Provisional; Region: PRK10756 469008013801 CreA protein; Region: CreA; pfam05981 469008013802 DNA-binding response regulator CreB; Provisional; Region: PRK11083 469008013803 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 469008013804 active site 469008013805 phosphorylation site [posttranslational modification] 469008013806 intermolecular recognition site; other site 469008013807 dimerization interface [polypeptide binding]; other site 469008013808 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 469008013809 DNA binding site [nucleotide binding] 469008013810 sensory histidine kinase CreC; Provisional; Region: PRK11100 469008013811 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 469008013812 dimerization interface [polypeptide binding]; other site 469008013813 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 469008013814 dimer interface [polypeptide binding]; other site 469008013815 phosphorylation site [posttranslational modification] 469008013816 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 469008013817 ATP binding site [chemical binding]; other site 469008013818 Mg2+ binding site [ion binding]; other site 469008013819 G-X-G motif; other site 469008013820 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 469008013821 two-component response regulator; Provisional; Region: PRK11173 469008013822 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 469008013823 active site 469008013824 phosphorylation site [posttranslational modification] 469008013825 intermolecular recognition site; other site 469008013826 dimerization interface [polypeptide binding]; other site 469008013827 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 469008013828 DNA binding site [nucleotide binding] 469008013829 putative RNA methyltransferase; Provisional; Region: PRK10433 469008013830 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050